Strain identifier
BacDive ID: 7003
Type strain:
Species: Methanothermococcus okinawensis
Strain Designation: IH1
Strain history: K. Takai IH1.
NCBI tax ID(s): 647113 (strain), 155863 (species)
General
@ref: 5251
BacDive-ID: 7003
DSM-Number: 14208
keywords: genome sequence, 16S sequence, Archaea, anaerobe, thermophilic
description: Methanothermococcus okinawensis IH1 is an anaerobe, thermophilic archaeon that was isolated from hydrothermal vent chimney, 972 m depth.
NCBI tax id
NCBI tax id | Matching level |
---|---|
647113 | strain |
155863 | species |
strain history
@ref | history |
---|---|
5251 | <- K. Takai, Subground Animalcule Retrieval (SUGAR) Program, Japan Agency for Marine-Earth Science and Technology (JAMSTEC); IH1 <- K. Takai {2000} |
67770 | K. Takai IH1. |
doi: 10.13145/bacdive7003.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanococci
- order: Methanococcales
- family: Methanococcaceae
- genus: Methanothermococcus
- species: Methanothermococcus okinawensis
- full scientific name: Methanothermococcus okinawensis Takai et al. 2002
@ref: 5251
domain: Archaea
phylum: Euryarchaeota
class: Methanococci
order: Methanococcales
family: Methanococcaceae
genus: Methanothermococcus
species: Methanothermococcus okinawensis
full scientific name: Methanothermococcus okinawensis Takai et al. 2002
strain designation: IH1
type strain: yes
Culture and growth conditions
culture medium
- @ref: 5251
- name: METHANOCALDOCOCCUS MEDIUM (DSMZ Medium 282)
- growth: yes
- link: https://mediadive.dsmz.de/medium/282
- composition: Name: METHANOCALDOCOCCUS MEDIUM (DSMZ Medium 282) Composition: MgCl2 x 6 H2O 4.05138 g/l NaHCO3 0.988142 g/l Na2S x 9 H2O 0.494071 g/l L-Cysteine HCl x H2O 0.494071 g/l KCl 0.326087 g/l NH4Cl 0.247036 g/l K2HPO4 0.13834 g/l MgSO4 x 7 H2O 0.0296443 g/l Nitrilotriacetic acid 0.0148221 g/l NaCl 0.00988142 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.00988142 g/l MnSO4 x H2O 0.00494071 g/l ZnSO4 x 7 H2O 0.00177866 g/l CoSO4 x 7 H2O 0.00177866 g/l CaCl2 x 2 H2O 0.000988142 g/l FeSO4 x 7 H2O 0.000988142 g/l Sodium resazurin 0.000494071 g/l NiCl2 x 6 H2O 0.000296443 g/l AlK(SO4)2 x 12 H2O 0.000197628 g/l Na2MoO4 x 2 H2O 9.88142e-05 g/l CuSO4 x 5 H2O 9.88142e-05 g/l H3BO3 9.88142e-05 g/l Pyridoxine hydrochloride 9.88142e-05 g/l Thiamine HCl 4.94071e-05 g/l (DL)-alpha-Lipoic acid 4.94071e-05 g/l p-Aminobenzoic acid 4.94071e-05 g/l Riboflavin 4.94071e-05 g/l Nicotinic acid 4.94071e-05 g/l Calcium D-(+)-pantothenate 4.94071e-05 g/l Biotin 1.97628e-05 g/l Folic acid 1.97628e-05 g/l Na2WO4 x 2 H2O 3.95257e-06 g/l Na2SeO3 x 5 H2O 2.96443e-06 g/l Vitamin B12 9.88142e-07 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
5251 | positive | growth | 65 | thermophilic |
67770 | positive | growth | 60 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 5251
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
5251 | hydrothermal vent chimney, 972 m depth | Okinawa Trough, Iheya Ridge | Japan | JPN | Asia | 27.7833 | 126.9 |
67770 | Deep-sea hydrothermal vent chimney at the Iheya Ridge | Okinawa Trough | Japan | JPN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Hydrothermal vent |
#Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_192212.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17939;96_69644;97_90449;98_125299;99_192212&stattab=map
- Last taxonomy: Methanothermococcus
- 16S sequence: AB057722
- Sequence Identity:
- Total samples: 8
- aquatic counts: 8
Safety information
risk assessment
- @ref: 5251
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5251
- description: Methanothermococcus okinawensis gene for 16S rRNA, partial sequence
- accession: AB057722
- length: 1392
- database: ena
- NCBI tax ID: 155863
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Methanothermococcus okinawensis IH1 | GCA_000179575 | complete | ncbi | 647113 |
66792 | Methanothermococcus okinawensis IH1 | 650716055 | complete | img | 647113 |
66792 | Methanothermococcus okinawensis IH1 | 647113.14 | plasmid | patric | 647113 |
66792 | Methanothermococcus okinawensis IH1 | 647113.11 | complete | patric | 647113 |
GC content
- @ref: 5251
- GC-content: 33.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 85.457 | no |
flagellated | no | 94.808 | no |
gram-positive | no | 96.221 | no |
anaerobic | yes | 98.988 | yes |
aerobic | no | 96.209 | yes |
halophile | no | 88.138 | no |
spore-forming | no | 97.038 | no |
thermophile | yes | 98.574 | no |
glucose-util | yes | 71.508 | no |
glucose-ferment | no | 54.727 | no |
External links
@ref: 5251
culture collection no.: DSM 14208, JCM 11175
straininfo link
- @ref: 76464
- straininfo: 100753
literature
- topic: Phylogeny
- Pubmed-ID: 12148612
- title: Methanothermococcus okinawensis sp. nov., a thermophilic, methane-producing archaeon isolated from a Western Pacific deep-sea hydrothermal vent system.
- authors: Takai K, Inoue A, Horikoshi K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-52-4-1089
- year: 2002
- mesh: DNA, Ribosomal/analysis, Japan, Methane/*metabolism, Methanococcaceae/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Pacific Ocean, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, *Temperature
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
5251 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14208) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14208 | |
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) | |
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 | |
76464 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100753.1 | StrainInfo: A central database for resolving microbial strain identifiers |