Strain identifier
BacDive ID: 7106
Type strain: 
Species: Methanosarcina mazei
Strain Designation: TMA
Strain history: S. Asakawa TMA.
NCBI tax ID(s): 1293038 (strain), 2209 (species)
version 8.1 (current version)
General
@ref: 3509
BacDive-ID: 7106
DSM-Number: 9195
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic
description: Methanosarcina mazei TMA is an anaerobe, mesophilic archaeon that was isolated from paddy field soil.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1293038 | strain |
| 2209 | species |
strain history
| @ref | history |
|---|---|
| 3509 | <- S. Asakawa; TMA <- S. Asakawa and K. Hayano {1991} |
| 67770 | S. Asakawa TMA. |
doi: 10.13145/bacdive7106.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanomicrobia
- order: Methanosarcinales
- family: Methanosarcinaceae
- genus: Methanosarcina
- species: Methanosarcina mazei
- full scientific name: Methanosarcina mazei corrig. (Barker 1936) Mah and Kuhn 1984
synonyms
@ref synonym 20215 Methanosarcina frisia 20215 Methanococcus frisius 20215 Methanosarcina mazeii 20215 Methanococcus mazei
@ref: 3509
domain: Archaea
phylum: Euryarchaeota
class: Methanomicrobia
order: Methanosarcinales
family: Methanosarcinaceae
genus: Methanosarcina
species: Methanosarcina mazei
full scientific name: Methanosarcina mazei (Barker 1936) Mah and Kuhn 1984
strain designation: TMA
type strain: no
Culture and growth conditions
culture medium
- @ref: 3509
- name: METHANOSARCINA MEDIUM (DSMZ Medium 120)
- growth: yes
- link: https://mediadive.dsmz.de/medium/120
- composition: Name: METHANOSARCINA MEDIUM (DSMZ Medium 120; with strain-specific modifications) Composition: Trimethylamine-HCl 4.88281 g/l Na-acetate 2.44141 g/l NaCl 2.19727 g/l Casitone 1.95312 g/l Yeast extract 1.95312 g/l NaHCO3 1.95312 g/l MgSO4 x 7 H2O 0.488281 g/l NH4Cl 0.488281 g/l K2HPO4 0.341797 g/l Na2S x 9 H2O 0.292969 g/l L-Cysteine HCl x H2O 0.292969 g/l CaCl2 x 2 H2O 0.244141 g/l KH2PO4 0.224609 g/l HCl 0.00244141 g/l FeSO4 x 7 H2O 0.00195312 g/l FeCl2 x 4 H2O 0.00146484 g/l Sodium resazurin 0.000488281 g/l CoCl2 x 6 H2O 0.000185547 g/l MnCl2 x 4 H2O 9.76563e-05 g/l Pyridoxine hydrochloride 9.76563e-05 g/l ZnCl2 6.83594e-05 g/l Nicotinic acid 4.88281e-05 g/l (DL)-alpha-Lipoic acid 4.88281e-05 g/l Riboflavin 4.88281e-05 g/l p-Aminobenzoic acid 4.88281e-05 g/l Thiamine HCl 4.88281e-05 g/l Calcium D-(+)-pantothenate 4.88281e-05 g/l Na2MoO4 x 2 H2O 3.51562e-05 g/l NiCl2 x 6 H2O 2.34375e-05 g/l Biotin 1.95312e-05 g/l Folic acid 1.95312e-05 g/l H3BO3 5.85938e-06 g/l CuCl2 x 2 H2O 1.95313e-06 g/l Vitamin B12 9.76563e-07 g/l H2SO4 Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 3509 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 3509
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 3509 | paddy field soil | Fukuoka prefecture, Chikugo city | Japan | JPN | Asia |
| 67770 | Paddy field soil in Chikugo | Fukuoka | Japan | JPN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Field |
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Condition | #Anoxic (anaerobic) | |
| #Condition | #Humid |
taxonmaps
- @ref: 69479
- File name: preview.99_187097.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17802;96_68776;97_89418;98_121696;99_187097&stattab=map
- Last taxonomy: Methanosarcina
- 16S sequence: AB065295
- Sequence Identity:
- Total samples: 7202
- soil counts: 2215
- aquatic counts: 3372
- animal counts: 684
- plant counts: 931
Safety information
risk assessment
- @ref: 3509
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Methanosarcina mazei gene for 16S rRNA
- accession: AB065295
- length: 1439
- database: ena
- NCBI tax ID: 2209
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanosarcina mazei TMA | GCA_019669945 | complete | ncbi | 2209 |
| 66792 | Methanosarcina mazei JCM 9314 | GCA_001315865 | contig | ncbi | 1293038 |
| 66792 | Methanosarcina mazei JCM 9314 | 2681813026 | draft | img | 1293038 |
| 66792 | Methanosarcina mazei TMA | GCA_025035885 | chromosome | ncbi | 1434116 |
| 66792 | Methanosarcina mazei strain TMA | 2209.222 | complete | patric | 2209 |
| 66792 | Methanosarcina mazei TMA | 1434116.4 | complete | patric | 1434116 |
| 66792 | Methanosarcina mazei JCM 9314 | 1293038.3 | wgs | patric | 1293038 |
GC content
- @ref: 3509
- GC-content: 42.1
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 97.273 | no |
| gram-positive | no | 95.621 | no |
| anaerobic | yes | 96.359 | yes |
| aerobic | no | 93.925 | yes |
| halophile | no | 89.51 | no |
| spore-forming | no | 94.796 | no |
| motile | no | 91.04 | no |
| thermophile | no | 98.109 | yes |
| glucose-util | yes | 68.805 | no |
| glucose-ferment | no | 71.519 | no |
External links
@ref: 3509
culture collection no.: DSM 9195, JCM 9314, NBRC 101201
straininfo link
- @ref: 76561
- straininfo: 48592
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3509 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9195) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9195 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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) | |||
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 76561 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48592.1 | StrainInfo: A central database for resolving microbial strain identifiers |