Strain identifier
BacDive ID: 132210
Type strain: 
Species: Methanobacterium aggregans
Strain Designation: E09F.3
Strain history: M. Rother; Tech. Univ. Dresden, Germany; E09F.3.
NCBI tax ID(s): 1615586 (species)
version 8.1 (current version)
General
@ref: 23999
BacDive-ID: 132210
DSM-Number: 29428
keywords: genome sequence, 16S sequence, Archaea, thermophilic
description: Methanobacterium aggregans E09F.3 is a thermophilic archaeon that was isolated from sludge from a commercial biogas plant mainly fed with maize silage, cattle manure and dry poultry faeces.
NCBI tax id
- NCBI tax id: 1615586
- Matching level: species
strain history
| @ref | history |
|---|---|
| 23999 | <- M. Rother, TU Dresden, Inst. for Microbiol., Germany; E09F.3 <- T. Kern and A. Begenau {2013} |
| 67770 | M. Rother; Tech. Univ. Dresden, Germany; E09F.3. |
doi: 10.13145/bacdive132210.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanobacteria
- order: Methanobacteriales
- family: Methanobacteriaceae
- genus: Methanobacterium
- species: Methanobacterium aggregans
- full scientific name: Methanobacterium aggregans Kern et al. 2015
@ref: 23999
domain: Archaea
phylum: Euryarchaeota
class: Methanobacteria
order: Methanobacteriales
family: Methanobacteriaceae
genus: Methanobacterium
species: Methanobacterium aggregans
full scientific name: Methanobacterium aggregans Kern et al. 2015
strain designation: E09F.3
type strain: yes
Culture and growth conditions
culture medium
- @ref: 23999
- 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 | growth | type | temperature | range |
|---|---|---|---|---|
| 23999 | positive | growth | 40 | thermophilic |
| 67770 | positive | growth | 40 | thermophilic |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 23999 | sludge from a commercial biogas plant mainly fed with maize silage, cattle manure and dry poultry faeces | near Cologne | Germany | DEU | Europe |
| 67770 | Commercial biogas plant in Germany |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Plant (Factory) |
| #Environmental | #Terrestrial | #Mud (Sludge) |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
taxonmaps
- @ref: 69479
- File name: preview.99_188130.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17808;96_69366;97_90103;98_122480;99_188130&stattab=map
- Last taxonomy: Methanobacterium aggregans subclade
- 16S sequence: KP006499
- Sequence Identity:
- Total samples: 387
- soil counts: 25
- aquatic counts: 313
- animal counts: 25
- plant counts: 24
Safety information
risk assessment
- @ref: 23999
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 23999
- description: Methanobacterium aggregans strain E09F.3 16S ribosomal RNA gene, partial sequence
- accession: KP006499
- length: 1411
- database: ena
- NCBI tax ID: 1615586
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanobacterium aggregans DSM 29428 | GCA_017874455 | contig | ncbi | 1615586 |
| 66792 | Methanobacterium aggregans DSM 29428 | 2913520121 | draft | img | 1615586 |
GC content
- @ref: 23999
- GC-content: 39.1
- method: high performance liquid chromatography (HPLC)
External links
@ref: 23999
culture collection no.: DSM 29428, JCM 30569
straininfo link
- @ref: 90563
- straininfo: 397770
literature
- topic: Phylogeny
- Pubmed-ID: 25807978
- title: Methanobacterium aggregans sp. nov., a hydrogenotrophic methanogenic archaeon isolated from an anaerobic digester.
- authors: Kern T, Linge M, Rother M
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.000210
- year: 2015
- mesh: Base Composition, Bioreactors/*microbiology, DNA, Archaeal/genetics, Genes, Archaeal, Germany, Methanobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
| 23999 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29428 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29428) | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 90563 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID397770.1 |