Strain identifier
BacDive ID: 16790
Type strain: 
Species: Ammonifex thiophilus
Strain Designation: SR
Strain history: <- M. Miroshnichenko; SR
NCBI tax ID(s): 444093 (species)
version 8.1 (current version)
General
@ref: 8226
BacDive-ID: 16790
DSM-Number: 19636
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive, motile, rod-shaped
description: Ammonifex thiophilus SR is an anaerobe, spore-forming, thermophilic bacterium that was isolated from Treshchinnyi hot spring.
NCBI tax id
- NCBI tax id: 444093
- Matching level: species
strain history
- @ref: 8226
- history: <- M. Miroshnichenko; SR
doi: 10.13145/bacdive16790.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Thermoanaerobacterales
- family: Thermoanaerobacteraceae
- genus: Ammonifex
- species: Ammonifex thiophilus
- full scientific name: Ammonifex thiophilus Miroshnichenko et al. 2008
@ref: 8226
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Thermoanaerobacterales
family: Thermoanaerobacteraceae
genus: Ammonifex
species: Ammonifex thiophilus
full scientific name: Ammonifex thiophilus Miroshnichenko et al. 2008
strain designation: SR
type strain: yes
Morphology
cell morphology
- @ref: 31184
- gram stain: positive
- cell length: 03-06 µm
- cell width: 0.6-0.7 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 31184
- production: yes
Culture and growth conditions
culture medium
- @ref: 8226
- name: AMMONIFEX THIOPHILUS MEDIUM (DSMZ Medium 503c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/503c
- composition: Name: AMMONIFEX THIOPHILUS MEDIUM (DSMZ Medium 503c) Composition: Na2CO3 2.49252 g/l Na2S2O3 x 5 H2O 1.99402 g/l Na-formate 1.99402 g/l NaCl 0.99701 g/l KCl 0.498504 g/l MgCl2 x 6 H2O 0.398803 g/l Na2S x 9 H2O 0.299103 g/l NH4Cl 0.249253 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149552 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Nicotinic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 8226 | positive | growth | 70 | thermophilic |
| 31184 | positive | growth | 60-82 | hyperthermophilic |
| 31184 | positive | optimum | 75 | thermophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 31184 | positive | growth | 6-7.5 |
| 31184 | positive | optimum | 6.8-7 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 8226 | anaerobe |
| 31184 | anaerobe |
spore formation
- @ref: 31184
- spore formation: yes
observation
- @ref: 31184
- observation: aggregates in chains
metabolite utilization
- @ref: 31184
- Chebi-ID: 15740
- metabolite: formate
- utilization activity: +
- kind of utilization tested: carbon source
metabolite production
- @ref: 31184
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
Isolation, sampling and environmental information
isolation
- @ref: 8226
- sample type: Treshchinnyi hot spring
- geographic location: Kamchatka, Uzon Caldera,
- country: Russia
- origin.country: RUS
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_167566.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_703;96_3811;97_4700;98_6046;99_167566&stattab=map
- Last taxonomy: Ammonifex thiophilus
- 16S sequence: EF554597
- Sequence Identity:
- Total samples: 2
- soil counts: 1
- aquatic counts: 1
Safety information
risk assessment
- @ref: 8226
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8226
- description: Ammonifex thiophilus strain SR 16S ribosomal RNA gene, partial sequence
- accession: EF554597
- length: 1536
- database: ena
- NCBI tax ID: 444093
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Ammonifex thiophilus SR | GCA_003368535 | contig | ncbi | 444093 |
| 66792 | Ammonifex thiophilus SR | 2831524987 | draft | img | 444093 |
GC content
- @ref: 8226
- GC-content: 56.2
External links
@ref: 8226
culture collection no.: DSM 19636, VKM B-2461
straininfo link
- @ref: 85806
- straininfo: 396578
literature
- topic: Phylogeny
- Pubmed-ID: 19060086
- title: Ammonifex thiophilus sp. nov., a hyperthermophilic anaerobic bacterium from a Kamchatka hot spring.
- authors: Miroshnichenko ML, Tourova TP, Kolganova TV, Kostrikina NA, Chernych N, Bonch-Osmolovskaya EA
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.2008/000182-0
- year: 2008
- mesh: Gram-Positive Asporogenous Rods, Irregular/*classification/genetics/*physiology/ultrastructure, Hot Springs/*microbiology, Microscopy, Electron, Transmission, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Russia, Species Specificity
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 8226 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19636) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19636 | |||
| 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 | |||
| 31184 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 27511 | 28776041 | |
| 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) | |||
| 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 | |||
| 85806 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID396578.1 | StrainInfo: A central database for resolving microbial strain identifiers |