Strain identifier
BacDive ID: 6945
Type strain: 
Species: Methanobacterium oryzae
Strain Designation: FPi
Strain history: <- C. Joulian, Université de Provence, Marseille, France; FPi <- C. Joulian {1995}
NCBI tax ID(s): 69540 (species)
version 8.1 (current version)
General
@ref: 4204
BacDive-ID: 6945
DSM-Number: 11106
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic
description: Methanobacterium oryzae FPi is an anaerobe, mesophilic archaeon that was isolated from ricefield soil.
NCBI tax id
- NCBI tax id: 69540
- Matching level: species
strain history
- @ref: 4204
- history: <- C. Joulian, Université de Provence, Marseille, France; FPi <- C. Joulian {1995}
doi: 10.13145/bacdive6945.20230509.8.1
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 oryzae
- full scientific name: Methanobacterium oryzae Joulian et al. 2000
@ref: 4204
domain: Archaea
phylum: Euryarchaeota
class: Methanobacteria
order: Methanobacteriales
family: Methanobacteriaceae
genus: Methanobacterium
species: Methanobacterium oryzae
full scientific name: Methanobacterium oryzae Joulian et al. 2000
strain designation: FPi
type strain: yes
Morphology
colony morphology
- @ref: 4204
- incubation period: 2-3 days
Culture and growth conditions
culture medium
- @ref: 4204
- name: METHANOBACTERIUM II MEDIUM (N2/CO2) (DSMZ Medium 825a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/825a
- composition: Name: METHANOBACTERIUM II MEDIUM (N2/CO2) (DSMZ Medium 825a; with strain-specific modifications) Composition: Methanol 7.7571 g/l NaHCO3 3.91773 g/l Na-formate 2.9383 g/l Trypticase peptone 0.979432 g/l NH4Cl 0.979432 g/l Yeast extract 0.979432 g/l Na2S x 9 H2O 0.489716 g/l L-Cysteine HCl x H2O 0.489716 g/l Na-acetate 0.489716 g/l K2HPO4 0.29383 g/l KH2PO4 0.29383 g/l MgCl2 x 6 H2O 0.195886 g/l KCl 0.0979432 g/l MgSO4 x 7 H2O 0.029383 g/l Nitrilotriacetic acid 0.0146915 g/l NaCl 0.00979432 g/l MnSO4 x H2O 0.00489716 g/l ZnSO4 x 7 H2O 0.00176298 g/l CoSO4 x 7 H2O 0.00176298 g/l CaCl2 x 2 H2O 0.000979432 g/l FeSO4 x 7 H2O 0.000979432 g/l Sodium resazurin 0.000489716 g/l NiCl2 x 6 H2O 0.00029383 g/l AlK(SO4)2 x 12 H2O 0.000195886 g/l Na2MoO4 x 2 H2O 9.79432e-05 g/l CuSO4 x 5 H2O 9.79432e-05 g/l H3BO3 9.79432e-05 g/l Pyridoxine hydrochloride 9.79432e-05 g/l (DL)-alpha-Lipoic acid 4.89716e-05 g/l p-Aminobenzoic acid 4.89716e-05 g/l Thiamine HCl 4.89716e-05 g/l Riboflavin 4.89716e-05 g/l Nicotinic acid 4.89716e-05 g/l Calcium D-(+)-pantothenate 4.89716e-05 g/l Biotin 1.95886e-05 g/l Folic acid 1.95886e-05 g/l Na2WO4 x 2 H2O 3.91773e-06 g/l Na2SeO3 x 5 H2O 2.9383e-06 g/l Vitamin B12 9.79432e-07 g/l Distilled water
culture temp
- @ref: 4204
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 4204
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 4204
- sample type: ricefield soil
- country: Philippines
- origin.country: PHL
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Field |
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
Safety information
risk assessment
- @ref: 4204
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4204
- description: Methanobacterium oryzae 16S ribosomal RNA, complete sequence
- accession: AF028690
- length: 1446
- database: ena
- NCBI tax ID: 69540
Genome sequences
- @ref: 66792
- description: Methanobacterium oryzae DSM 11106
- accession: 2913351602
- assembly level: draft
- database: img
- NCBI tax ID: 69540
GC content
- @ref: 4204
- GC-content: 31
- method: high performance liquid chromatography (HPLC)
External links
@ref: 4204
culture collection no.: DSM 11106, NBRC 105229
straininfo link
- @ref: 76407
- straininfo: 49033
literature
- topic: Phylogeny
- Pubmed-ID: 10758856
- title: Methanobacterium oryzae sp. nov., a novel methanogenic rod isolated from a Philippines ricefield.
- authors: Joulian C, Patel BK, Ollivier B, Garcia JL, Roger PA
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-50-2-525
- year: 2000
- mesh: Agriculture, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Methane/metabolism, Methanobacterium/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, *Oryza, Philippines, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Temperature
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 4204 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11106) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-11106 | |
| 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) | |
| 76407 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49033.1 | StrainInfo: A central database for resolving microbial strain identifiers |