Strain identifier
BacDive ID: 6952
Type strain: 
Species: Methanobacterium petrolearium
Strain Designation: Mic5c12
Strain history: <- K. Mori, Natl. Inst. of Technol. and Evaluation (NITE), Japan
NCBI tax ID(s): 710190 (species)
version 8.1 (current version)
General
@ref: 16309
BacDive-ID: 6952
DSM-Number: 22353
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic, Gram-variable, rod-shaped
description: Methanobacterium petrolearium Mic5c12 is an anaerobe, mesophilic, Gram-variable archaeon that was isolated from oil sludge.
NCBI tax id
- NCBI tax id: 710190
- Matching level: species
strain history
- @ref: 16309
- history: <- K. Mori, Natl. Inst. of Technol. and Evaluation (NITE), Japan
doi: 10.13145/bacdive6952.20230509.8.1
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 petrolearium
- full scientific name: Methanobacterium petrolearium Mori and Harayama 2011
@ref: 16309
domain: Archaea
phylum: Euryarchaeota
class: Methanobacteria
order: Methanobacteriales
family: Methanobacteriaceae
genus: Methanobacterium
species: Methanobacterium petrolearium
full scientific name: Methanobacterium petrolearium Mori and Harayama 2011
strain designation: Mic5c12
type strain: yes
Morphology
cell morphology
- @ref: 29854
- gram stain: variable
- cell length: 3.55 µm
- cell width: 0.3 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 16309
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 16309
- name: METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141)
- growth: yes
- link: https://mediadive.dsmz.de/medium/141
- composition: Name: METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141) Composition: NaHCO3 4.89237 g/l MgCl2 x 6 H2O 3.91389 g/l Yeast extract 1.95695 g/l Trypticase peptone 1.95695 g/l Na-acetate 0.978474 g/l Na2S x 9 H2O 0.489237 g/l L-Cysteine HCl x H2O 0.489237 g/l KCl 0.332681 g/l NH4Cl 0.244618 g/l K2HPO4 0.136986 g/l MgSO4 x 7 H2O 0.0293542 g/l Nitrilotriacetic acid 0.0146771 g/l NaCl 0.00978474 g/l MnSO4 x H2O 0.00489237 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.00195695 g/l CoSO4 x 7 H2O 0.00176125 g/l ZnSO4 x 7 H2O 0.00176125 g/l FeSO4 x 7 H2O 0.000978474 g/l CaCl2 x 2 H2O 0.000978474 g/l Sodium resazurin 0.000489237 g/l NiCl2 x 6 H2O 0.000293542 g/l AlK(SO4)2 x 12 H2O 0.000195695 g/l CuSO4 x 5 H2O 9.78474e-05 g/l Pyridoxine hydrochloride 9.78474e-05 g/l Na2MoO4 x 2 H2O 9.78474e-05 g/l H3BO3 9.78474e-05 g/l Nicotinic acid 4.89237e-05 g/l Riboflavin 4.89237e-05 g/l (DL)-alpha-Lipoic acid 4.89237e-05 g/l Thiamine HCl 4.89237e-05 g/l Calcium D-(+)-pantothenate 4.89237e-05 g/l p-Aminobenzoic acid 4.89237e-05 g/l Folic acid 1.95695e-05 g/l Biotin 1.95695e-05 g/l Na2WO4 x 2 H2O 3.91389e-06 g/l Na2SeO3 x 5 H2O 2.93542e-06 g/l Vitamin B12 9.78474e-07 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 16309 | positive | growth | 35 | mesophilic |
| 29854 | positive | growth | 20-40 | |
| 29854 | positive | optimum | 35 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29854 | positive | growth | 5.5-9.0 | alkaliphile |
| 29854 | positive | optimum | 6.5 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 16309 | anaerobe |
| 29854 | anaerobe |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29854 | NaCl | positive | growth | 0-6.96 % |
| 29854 | NaCl | positive | optimum | 1.972 % |
Isolation, sampling and environmental information
isolation
- @ref: 16309
- sample type: oil sludge
- geographic location: Kagoshima
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Oil reservoir |
| #Environmental | #Terrestrial | #Mud (Sludge) |
Safety information
risk assessment
- @ref: 16309
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16309
- description: Methanobacterium petrolearium gene for 16S ribosomal RNA, partial sequence
- accession: AB542742
- length: 1392
- database: ena
- NCBI tax ID: 710190
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanobacterium petrolearium DSM 22353 | GCA_017873625 | contig | ncbi | 710190 |
| 66792 | Methanobacterium petrolearium DSM 22353 | 2913397459 | draft | img | 710190 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 16309 | 38.3 | high performance liquid chromatography (HPLC) |
| 29854 | 38.3 |
External links
@ref: 16309
culture collection no.: DSM 22353, NBRC 105198
straininfo link
- @ref: 76414
- straininfo: 402151
literature
- topic: Phylogeny
- Pubmed-ID: 20173004
- title: Methanobacterium petrolearium sp. nov. and Methanobacterium ferruginis sp. nov., mesophilic methanogens isolated from salty environments.
- authors: Mori K, Harayama S
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.022723-0
- year: 2010
- mesh: Alcohols/metabolism, Archaeal Proteins/genetics, Carbon Dioxide/metabolism, Cluster Analysis, DNA, Archaeal/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Hydrogen/metabolism, Hydrogen-Ion Concentration, Methane/metabolism, Methanobacterium/*classification/genetics/*isolation & purification, Molecular Sequence Data, Oxidoreductases/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Sodium Chloride/metabolism, Temperature
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 16309 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22353) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22353 | |||
| 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 | |||
| 29854 | 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 | 26228 | 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) | |||
| 76414 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402151.1 | StrainInfo: A central database for resolving microbial strain identifiers |