Strain identifier
BacDive ID: 7050
Type strain: 
Species: Methanothrix thermoacetophila
Strain Designation: PT
Strain history: NBRC 101360 <-- Y. Kamagata PT.
NCBI tax ID(s): 2224 (species)
version 9.1 (current version)
General
@ref: 2522
BacDive-ID: 7050
DSM-Number: 6194
keywords: genome sequence, 16S sequence, Archaea, anaerobe, Gram-negative
description: Methanothrix thermoacetophila PT is an anaerobe, Gram-negative archaeon that was isolated from sludge, thermophilic anaerobic digester.
NCBI tax id
- NCBI tax id: 2224
- Matching level: species
strain history
| @ref | history |
|---|---|
| 2522 | <- Y. Kamagata, Fermentation Research Institute, Tsukuba, Ibaraki, Japan; PT <- Y. Kamagata and E. Mikami {1988} |
| 67770 | NBRC 101360 <-- Y. Kamagata PT. |
doi: 10.13145/bacdive7050.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanomicrobia
- order: Methanosarcinales
- family: Methanotrichaceae
- genus: Methanothrix
- species: Methanothrix thermoacetophila
- full scientific name: Methanothrix thermoacetophila corrig. Nozhevnikova and Chudina 1988
synonyms
@ref synonym 20215 Methanothrix thermophila 20215 Methanosaeta thermophila 20215 Methanothrix thermoacetophilia 20215 Methanosaeta thermoacetophila
@ref: 2522
domain: Archaea
phylum: Euryarchaeota
class: Methanomicrobia
order: Methanosarcinales
family: Methanosaetaceae
genus: Methanothrix
species: Methanothrix thermoacetophila
full scientific name: Methanothrix thermoacetophila Nozhevnikova and Chudina 1988
strain designation: PT
type strain: no
Morphology
colony morphology
- @ref: 2522
- incubation period: 3-7 days
multimedia
- @ref: 2522
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_6194.jpg
- caption: Medium 334a with strain-specific modifications, 55°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 2522
- name: METHANOTHRIX SOEHNGENII MEDIUM (DSMZ Medium 334a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/334a
- composition: Name: METHANOTHRIX SOEHNGENII MEDIUM (DSMZ Medium 334a; with strain-specific modifications) Composition: Na-acetate 6.8 g/l Na2CO3 1.25 g/l Na2HPO4 x 2 H2O 0.86 g/l Methanol 0.792 g/l Na2S x 9 H2O 0.5 g/l NaCl 0.3 g/l NH4Cl 0.3 g/l KH2PO4 0.22 g/l 2-Mercaptoethanesulfonate 0.14 g/l Nitrilotriacetic acid 0.128 g/l CaCl2 x 2 H2O 0.11 g/l MgCl2 x 6 H2O 0.1 g/l FeCl3 x 6 H2O 0.0135 g/l Butyl vinyl ether 0.005 g/l L-alpha-Phosphatidylcholine 0.005 g/l NiCl2 x 6 H2O 0.0012 g/l MnCl2 x 4 H2O 0.001 g/l ZnCl2 0.001 g/l Na2-EDTA 0.000999999 g/l Sodium resazurin 0.0005 g/l CuCl2 0.0003 g/l CoCl2 x 6 H2O 0.0003 g/l Na2MoO4 x 2 H2O 0.0003 g/l Na2SeO3 x 5 H2O 0.0003 g/l H3BO3 0.0001 g/l Pyridoxine hydrochloride 0.0001 g/l (DL)-alpha-Lipoic acid 5e-05 g/l Riboflavin 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Nicotinic acid 5e-05 g/l Thiamine HCl 5e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Vitamin B12 1e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 2522 | positive | growth | 55 |
| 67770 | positive | growth | 55 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 2522 | anaerobe | |
| 69480 | anaerobe | 91.616 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 95.136
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 2522 | sludge, thermophilic anaerobic digester | Japan | JPN | Asia |
| 67770 | Digested sludge from a thermophilic anaerobic digestor |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Biodegradation | #Anaerobic digestor |
| #Environmental | #Terrestrial | #Mud (Sludge) |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_188479.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17997;96_69193;97_90295;98_122722;99_188479&stattab=map
- Last taxonomy: Methanothrix thermoacetophila subclade
- 16S sequence: AB071701
- Sequence Identity:
- Total samples: 58
- soil counts: 1
- aquatic counts: 54
- animal counts: 3
Safety information
risk assessment
- @ref: 2522
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Methanosaeta thermophila PT gene for 16S rRNA, partial sequence
- accession: AB071701
- length: 1403
- database: nuccore
- NCBI tax ID: 349307
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanothrix thermoacetophila PT | GCA_000014945 | complete | ncbi | 349307 |
| 66792 | Methanothrix thermoacetophila PT | 639633038 | complete | img | 349307 |
| 66792 | Methanosaeta thermophila PT | 349307.15 | complete | patric | 349307 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 2522 | 52.7 | |
| 67770 | 52.7 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 66.565 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 91.616 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 91.868 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 95.136 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 57.636 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 82.25 | no |
External links
@ref: 2522
culture collection no.: DSM 6194, JCM 14653, NBRC 101360
straininfo link
- @ref: 76509
- straininfo: 48117
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16403877 | Methanosaeta harundinacea sp. nov., a novel acetate-scavenging methanogen isolated from a UASB reactor. | Ma K, Liu X, Dong X | Int J Syst Evol Microbiol | 10.1099/ijs.0.63887-0 | 2006 | Acetates/metabolism, Anaerobiosis, Base Composition, Beer, *Bioreactors, China, Culture Media, DNA Restriction Enzymes/genetics, Hydrogen-Ion Concentration, Methane/metabolism, Methanosarcinaceae/chemistry/*classification/isolation & purification/physiology, Molecular Sequence Data, Oxidoreductases/genetics/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Sewage/*microbiology, Species Specificity | Metabolism |
| Phylogeny | 35709936 | Bioaugmentation with methanogens cultured in a micro-aerobic microbial community for overloaded anaerobic digestion recovery. | Hua B, Cai Y, Cui Z, Wang X | Anaerobe | 10.1016/j.anaerobe.2022.102603 | 2022 | Anaerobiosis, Bioreactors, *Euryarchaeota/genetics, Methane, *Microbiota, RNA, Ribosomal, 16S/genetics |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 2522 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6194) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6194 | |||
| 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 | |||
| 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) | |||
| 76509 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48117.1 | StrainInfo: A central database for resolving microbial strain identifiers |