Strain identifier
BacDive ID: 6136
Type strain: 
Species: Hydrogenophilus hirschii
Strain Designation: YEL 5a
Strain history: M. Thomm Yel 5a.
NCBI tax ID(s): 85993 (species)
version 8.1 (current version)
General
@ref: 4358
BacDive-ID: 6136
DSM-Number: 11420
keywords: 16S sequence, Bacteria, thermophilic
description: Hydrogenophilus hirschii YEL 5a is a thermophilic bacterium that was isolated from Solfatara.
NCBI tax id
- NCBI tax id: 85993
- Matching level: species
strain history
| @ref | history |
|---|---|
| 4358 | <- M. Thomm; YEL 5a <- R. Stöhr |
| 67770 | M. Thomm Yel 5a. |
doi: 10.13145/bacdive6136.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Hydrogenophilia
- order: Hydrogenophilales
- family: Hydrogenophilaceae
- genus: Hydrogenophilus
- species: Hydrogenophilus hirschii
- full scientific name: Hydrogenophilus hirschii Stöhr et al. 2001
@ref: 4358
domain: Bacteria
phylum: Proteobacteria
class: Hydrogenophilalia
order: Hydrogenophilales
family: Hydrogenophilaceae
genus: Hydrogenophilus
species: Hydrogenophilus hirschii
full scientific name: Hydrogenophilus hirschii Stöhr et al. 2001
strain designation: YEL 5a
type strain: yes
Culture and growth conditions
culture medium
- @ref: 4358
- name: HYDROGENOTHERMUS HIRSCHII MEDIUM (DSMZ Medium 783)
- growth: yes
- link: https://mediadive.dsmz.de/medium/783
- composition: Name: HYDROGENOTHERMUS HIRSCHII MEDIUM (DSMZ Medium 783) Composition: MgCl2 x 6 H2O 5.5 g/l NaHCO3 2.0 g/l KCl 0.65 g/l Sulfur 0.5 g/l K2HPO4 0.15 g/l NH4Cl 0.15 g/l NaBr 0.1 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l CoSO4 x 7 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l CaCl2 x 2 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l CuSO4 x 5 H2O 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 4358 | positive | growth | 60 | thermophilic |
| 67770 | positive | growth | 60 | thermophilic |
Physiology and metabolism
observation
- @ref: 67770
- observation: quinones: Q-8
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 4358 | Solfatara | Yellowstone National Park, Angle Terrace Spring | USA | USA | North America |
| 67770 | Angel Terrace Spring | Yellowstone National Park, WY | USA | USA | North America |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Volcanic
taxonmaps
- @ref: 69479
- File name: preview.99_61234.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16099;96_15460;97_22732;98_43459;99_61234&stattab=map
- Last taxonomy: Hydrogenophilus thermoluteolus
- 16S sequence: FR749905
- Sequence Identity:
- Total samples: 5780
- soil counts: 520
- aquatic counts: 965
- animal counts: 4013
- plant counts: 282
Safety information
risk assessment
- @ref: 4358
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Hydrogenothermophilus hirschii 16S rRNA gene, strain yel5a | AJ131694 | 1378 | ena | 85993 |
| 4358 | Hydrogenophilus hirschii partial 16S rRNA gene, type strain DSM 11420T | FR749905 | 1533 | ena | 85993 |
GC content
- @ref: 67770
- GC-content: 61
- method: high performance liquid chromatography (HPLC)
External links
@ref: 4358
culture collection no.: DSM 11420, JCM 10831
straininfo link
- @ref: 75623
- straininfo: 49108
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 11321094 | Hydrogenophilus hirschii sp. nov., a novel thermophilic hydrogen-oxidizing beta-proteobacterium isolated from Yellowstone National Park. | Stohr R, Waberski A, Liesack W, Volker H, Wehmeyer U, Thomm M | Int J Syst Evol Microbiol | 10.1099/00207713-51-2-481 | 2001 | Base Composition, Betaproteobacteria/*classification/isolation & purification/ultrastructure, DNA, Ribosomal/genetics, Fatty Acids/analysis, Geological Phenomena, Geology, *Hot Temperature, Hydrogen/*metabolism, Molecular Sequence Data, Oxidation-Reduction, Quinones/analysis, RNA, Ribosomal, 16S/genetics, *Water Microbiology | Stress |
| Phylogeny | 20228213 | Hydrogenophilus islandicus sp. nov., a thermophilic hydrogen-oxidizing bacterium isolated from an Icelandic hot spring. | Vesteinsdottir H, Reynisdottir DB, Orlygsson J | Int J Syst Evol Microbiol | 10.1099/ijs.0.023572-0 | 2010 | Bacterial Typing Techniques, Base Composition, Carbon Dioxide/metabolism, DNA, Bacterial/genetics, Fatty Acids/analysis, Heterotrophic Processes, Hot Springs/*microbiology, Hot Temperature, Hydrogen/metabolism, Hydrogen-Ion Concentration, Hydrogenophilaceae/*classification/genetics/isolation & purification, Iceland, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Water Microbiology | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4358 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11420) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-11420 | |||
| 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 | |
| 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 | |||
| 75623 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49108.1 | StrainInfo: A central database for resolving microbial strain identifiers |