Strain identifier
BacDive ID: 161196
Type strain: 
Species: Hydrogenimonas thermophila
Strain history: K. Takai EP1-55-1%.
NCBI tax ID(s): 223786 (species)
version 8.1 (current version)
General
@ref: 67770
BacDive-ID: 161196
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, motile
description: Hydrogenimonas thermophila JCM 11971 is an anaerobe, thermophilic, motile bacterium that was isolated from Black smoker at the Kairei Field on the Central Indian Ridgem Indian Ocean.
NCBI tax id
- NCBI tax id: 223786
- Matching level: species
strain history
- @ref: 67770
- history: K. Takai EP1-55-1%.
doi: 10.13145/bacdive161196.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Epsilonproteobacteria
- order: Campylobacterales
- family: Hydrogenimonadaceae
- genus: Hydrogenimonas
- species: Hydrogenimonas thermophila
- full scientific name: Hydrogenimonas thermophila Takai et al. 2004
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Epsilonproteobacteria
order: Campylobacterales
family: Hydrogenimonadaceae
genus: Hydrogenimonas
species: Hydrogenimonas thermophila
full scientific name: Hydrogenimonas thermophila Takai et al. 2004
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.523 | |
| 69480 | 100 | negative |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 55
- range: thermophilic
Physiology and metabolism
oxygen tolerance
- @ref: 69480
- oxygen tolerance: anaerobe
- confidence: 95.339
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.898 |
| 69481 | no | 99 |
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Black smoker at the Kairei Field on the Central Indian Ridgem Indian Ocean
taxonmaps
- @ref: 69479
- File name: preview.99_121372.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1597;96_6770;97_61407;98_81709;99_121372&stattab=map
- Last taxonomy: Hydrogenimonas thermophila subclade
- 16S sequence: AB105048
- Sequence Identity:
- Total samples: 71
- aquatic counts: 66
- animal counts: 5
Sequence information
16S sequences
- @ref: 67770
- description: Hydrogenimonas thermophila rrn gene for 16S rRNA, partial sequence
- accession: AB105048
- length: 1422
- database: ena
- NCBI tax ID: 223786
Genome sequences
- @ref: 67770
- description: Hydrogenimonas thermophila EP1-55-1
- accession: GCA_900115615
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 223786
GC content
- @ref: 67770
- GC-content: 34.6
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 99 | no |
| motile | yes | 90.528 | no |
| flagellated | no | 52.611 | no |
| gram-positive | no | 98.87 | no |
| anaerobic | yes | 85.271 | no |
| aerobic | no | 98.715 | no |
| halophile | no | 87.868 | no |
| spore-forming | no | 90.353 | no |
| glucose-ferment | no | 88.381 | no |
| thermophile | yes | 89.72 | no |
| glucose-util | no | 62.982 | no |
External links
@ref: 67770
culture collection no.: JCM 11971, ATCC BAA 737
straininfo link
- @ref: 113267
- straininfo: 130841
literature
- topic: Phylogeny
- Pubmed-ID: 14742455
- title: Hydrogenimonas thermophila gen. nov., sp. nov., a novel thermophilic, hydrogen-oxidizing chemolithoautotroph within the epsilon-Proteobacteria, isolated from a black smoker in a Central Indian Ridge hydrothermal field.
- authors: Takai K, Nealson KH, Horikoshi K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02787-0
- year: 2004
- mesh: Cell Division, DNA, Bacterial/genetics, Epsilonproteobacteria/*classification/growth & development/isolation & purification/ultrastructure, Fatty Acids/analysis, India, Kinetics, Molecular Sequence Data, Phylogeny, Seawater/*microbiology, Smoke/*analysis, Water Microbiology
- topic2: Enzymology
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |
| 113267 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID130841.1 |