Strain identifier
BacDive ID: 7036
Type strain: 
Species: Methanogenium marinum
Strain Designation: AK-1
Strain history: <- D. R. Boone, Portland State Univ., USA; AK-1 <- Y. Liu {1998}
NCBI tax ID(s): 348610 (species)
version 9.1 (current version)
General
@ref: 6001
BacDive-ID: 7036
DSM-Number: 15558
keywords: genome sequence, 16S sequence, Archaea, anaerobe, Gram-negative
description: Methanogenium marinum AK-1 is an anaerobe, Gram-negative archaeon that was isolated from marine sediments, 38-45 m below the surface.
NCBI tax id
- NCBI tax id: 348610
- Matching level: species
strain history
- @ref: 6001
- history: <- D. R. Boone, Portland State Univ., USA; AK-1 <- Y. Liu {1998}
doi: 10.13145/bacdive7036.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanomicrobia
- order: Methanomicrobiales
- family: Methanomicrobiaceae
- genus: Methanogenium
- species: Methanogenium marinum
- full scientific name: Methanogenium marinum Chong et al. 2003
@ref: 6001
domain: Archaea
phylum: Euryarchaeota
class: Methanomicrobia
order: Methanomicrobiales
family: Methanomicrobiaceae
genus: Methanogenium
species: Methanogenium marinum
full scientific name: Methanogenium marinum Chong et al. 2003
strain designation: AK-1
type strain: yes
Morphology
colony morphology
- @ref: 6001
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 6001
- 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; with strain-specific modifications) Composition: NaHCO3 4.89237 g/l MgCl2 x 6 H2O 3.91389 g/l Trypticase peptone 1.95695 g/l Yeast extract 1.95695 g/l Na-acetate 0.978474 g/l 2-Mercaptoethanesulfonic acid 0.489237 g/l L-Cysteine HCl x H2O 0.489237 g/l Na2S x 9 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 CaCl2 x 2 H2O 0.000978474 g/l FeSO4 x 7 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 p-Aminobenzoic acid 4.89237e-05 g/l Calcium D-(+)-pantothenate 4.89237e-05 g/l (DL)-alpha-Lipoic acid 4.89237e-05 g/l Nicotinic acid 4.89237e-05 g/l Riboflavin 4.89237e-05 g/l Thiamine HCl 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: 6001
- growth: positive
- type: growth
- temperature: 22
Physiology and metabolism
oxygen tolerance
- @ref: 6001
- oxygen tolerance: anaerobe
spore formation
- @ref: 69480
- spore formation: no
- confidence: 98.62
Isolation, sampling and environmental information
isolation
- @ref: 6001
- sample type: marine sediments, 38-45 m below the surface
- geographic location: Alaska, Aleuten Islands, Unalaska Island, Skan Bay
- country: USA
- origin.country: USA
- continent: North America
- latitude: 53.6167
- longitude: -167.05
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Sediment
Safety information
risk assessment
- @ref: 6001
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6001
- description: Methanogenium marinum strain AK-1 16S ribosomal RNA gene, partial sequence
- accession: DQ177344
- length: 1436
- database: nuccore
- NCBI tax ID: 348610
Genome sequences
- @ref: 66792
- description: Methanogenium marinum DSM 15558
- accession: GCA_028912405
- assembly level: contig
- database: ncbi
- NCBI tax ID: 348610
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 68.699 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 66.38 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 85.3 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 98.62 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 84.63 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 78.346 | no |
External links
@ref: 6001
culture collection no.: DSM 15558, OCM 752
straininfo link
- @ref: 76496
- straininfo: 113600
literature
- topic: Phylogeny
- Pubmed-ID: 12448725
- title: Methanogenium marinum sp. nov., a H2-using methanogen from Skan Bay, Alaska, and kinetics of H2 utilization.
- authors: Chong SC, Liu Y, Cummins M, Valentine DL, Boone DR
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1023/a:1020535222281
- year: 2002
- mesh: Alaska, Bacterial Typing Techniques, Cold Temperature, Culture Media, DNA, Ribosomal/analysis, Geologic Sediments/microbiology, Hydrogen/*metabolism, Kinetics, Methane/*metabolism, Methanomicrobiaceae/*classification/genetics/growth & development/*isolation & purification, Nucleic Acid Hybridization, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 6001 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15558) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15558 | |
| 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) | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 76496 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID113600.1 | StrainInfo: A central database for resolving microbial strain identifiers |