Strain identifier
BacDive ID: 5461
Type strain: 
Species: Ferroplasma acidiphilum
Strain Designation: Y
Strain history: DSM 12658 <-- P. N. Golyshin strain Y.
NCBI tax ID(s): 74969 (species)
version 8.1 (current version)
General
@ref: 4786
BacDive-ID: 5461
DSM-Number: 12658
keywords: genome sequence, 16S sequence, Archaea, mesophilic
description: Ferroplasma acidiphilum Y is a mesophilic archaeon that was isolated from pyrite-leaching pilot plant.
NCBI tax id
- NCBI tax id: 74969
- Matching level: species
strain history
| @ref | history |
|---|---|
| 4786 | <- P. N. Golyshin, Gesellschaft für Biotechnologische Forschung, Braunschweig, Germany; Y <- O. V. Golyshina {1993} |
| 67770 | DSM 12658 <-- P. N. Golyshin strain Y. |
doi: 10.13145/bacdive5461.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Thermoplasmata
- order: Thermoplasmatales
- family: Ferroplasmataceae
- genus: Ferroplasma
- species: Ferroplasma acidiphilum
- full scientific name: Ferroplasma acidiphilum Golyshina et al. 2000
@ref: 4786
domain: Archaea
phylum: Euryarchaeota
class: Thermoplasmata
order: Thermoplasmatales
family: Ferroplasmaceae
genus: Ferroplasma
species: Ferroplasma acidiphilum
full scientific name: Ferroplasma acidiphilum Golyshina et al. 2000
strain designation: Y
type strain: yes
Culture and growth conditions
culture medium
- @ref: 4786
- name: FERROPLASMA ACIDIPHILUM MEDIUM (DSMZ Medium 874)
- growth: yes
- link: https://mediadive.dsmz.de/medium/874
- composition: Name: FERROPLASMA ACIDIPHILUM MEDIUM (DSMZ Medium 874) Composition: FeSO4 x 7 H2O 25.0 g/l MgSO4 x 7 H2O 0.4 g/l (NH4)2SO4 0.2 g/l Yeast extract 0.2 g/l KCl 0.1 g/l K2HPO4 0.1 g/l FeCl3 x 6 H2O 0.0193 g/l Na2B4O7 x 10 H2O 0.0045 g/l MnCl2 x 4 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.00022 g/l CuCl2 x 2 H2O 5e-05 g/l VOSO4 x 5 H2O 3.8e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l CoSO4 x 7 H2O 2e-05 g/l H2SO4 Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 4786 | positive | growth | 35 | mesophilic |
| 67770 | positive | growth | 35 | mesophilic |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent | geographic location |
|---|---|---|---|---|---|
| 4786 | pyrite-leaching pilot plant | Kazakhstan | KAZ | Asia | |
| 67770 | Bioleaching pilot plant | Russia | RUS | Tula |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Plant (Factory) |
| #Environmental | #Aquatic |
taxonmaps
- @ref: 69479
- File name: preview.99_187941.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17825;96_68883;97_89531;98_122343;99_187941&stattab=map
- Last taxonomy: Ferroplasma
- 16S sequence: AJ224936
- Sequence Identity:
- Total samples: 58
- soil counts: 1
- aquatic counts: 56
- animal counts: 1
Safety information
risk assessment
- @ref: 4786
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Ferroplasma acidiphilum strain Y 16S ribosomal RNA gene, partial sequence | JQ346763 | 1261 | ena | 74969 |
| 4786 | Ferroplasma acidiphilum 16S rRNA gene | AJ224936 | 1453 | ena | 74969 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Ferroplasma acidiphilum Y | GCA_002078355 | complete | ncbi | 74969 |
| 66792 | Ferroplasma acidiphilum Y | 2740892000 | complete | img | 74969 |
GC content
- @ref: 4786
- GC-content: 36.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 97.889 | no |
| gram-positive | no | 93.616 | no |
| anaerobic | yes | 66.605 | no |
| aerobic | no | 88.307 | no |
| halophile | no | 83.472 | no |
| spore-forming | no | 95.452 | no |
| thermophile | yes | 99.496 | yes |
| glucose-util | yes | 85.395 | no |
| motile | no | 82.463 | no |
| glucose-ferment | no | 71.842 | no |
External links
@ref: 4786
culture collection no.: DSM 12658, JCM 10970
straininfo link
- @ref: 74949
- straininfo: 49337
literature
- topic: Enzymology
- Pubmed-ID: 15954864
- title: A novel alpha-glucosidase from the acidophilic archaeon Ferroplasma acidiphilum strain Y with high transglycosylation activity and an unusual catalytic nucleophile.
- authors: Ferrer M, Golyshina OV, Plou FJ, Timmis KN, Golyshin PN
- journal: Biochem J
- DOI: 10.1042/BJ20050346
- year: 2005
- mesh: Archaea/*enzymology/genetics, Binding Sites, Catalysis, Cloning, Molecular, Enzyme Stability, Glucosides/metabolism, Glycoside Hydrolase Inhibitors, Glycosylation, Hydrogen-Ion Concentration, Iron/metabolism, Kinetics, Maltose/metabolism, Protein Binding, Substrate Specificity, Sucrose/metabolism, Temperature, Trisaccharides/metabolism, alpha-Glucosidases/genetics/*metabolism
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4786 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12658) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12658 | |||
| 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 | |||
| 74949 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49337.1 | StrainInfo: A central database for resolving microbial strain identifiers |