Strain identifier
BacDive ID: 24009
Type strain: 
Species: Ferroplasma acidiphilum
Strain Designation: BRGM4
Strain history: W. Sand; Aquatic Biotechnol., Biofilm Centre, Univ. of Duisburg-Essen, Germany; BRGM4 <-- D. B. Johnson.
NCBI tax ID(s): 74969 (species)
version 8.1 (current version)
General
@ref: 20960
BacDive-ID: 24009
DSM-Number: 28986
keywords: genome sequence, 16S sequence, Archaea, mesophilic, Gram-negative
description: Ferroplasma acidiphilum BRGM4 is a mesophilic, Gram-negative archaeon that was isolated from bioleaching pilot plant.
NCBI tax id
- NCBI tax id: 74969
- Matching level: species
strain history
| @ref | history |
|---|---|
| 20960 | <- R. Zhang, Univ. Duisburg-Essen, Germany; BRGM4 <- B. D. Johnson, Bangor Univ., Wales, U.K. |
| 67770 | W. Sand; Aquatic Biotechnol., Biofilm Centre, Univ. of Duisburg-Essen, Germany; BRGM4 <-- D. B. Johnson. |
doi: 10.13145/bacdive24009.20230509.8.1
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: 20960
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: BRGM4
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.981
colony morphology
- @ref: 20960
- incubation period: 2-3 days
Culture and growth conditions
culture medium
- @ref: 20960
- 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 | confidence |
|---|---|---|---|---|---|
| 20960 | positive | growth | 35 | mesophilic | |
| 67770 | positive | growth | 37 | mesophilic | |
| 69480 | thermophilic | 98.2 |
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.992
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 20960 | bioleaching pilot plant | Orléans | France | FRA | Europe | 47.8305 | 1.9367 |
| 67770 | Pilot scale bioreactor |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | |
| #Engineered | #Industrial | #Plant (Factory) |
Safety information
risk assessment
- @ref: 20960
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20960
- description: Ferroplasma acidiphilum strain BRGM4 16S ribosomal RNA gene, partial sequence
- accession: KJ847278
- length: 938
- database: ena
- NCBI tax ID: 74969
Genome sequences
- @ref: 66792
- description: Ferroplasma acidiphilum DSM 28986
- accession: GCA_013133875
- assembly level: contig
- database: ncbi
- NCBI tax ID: 74969
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 78 | no |
| motile | no | 82.44 | no |
| flagellated | no | 97.908 | no |
| gram-positive | no | 94.25 | no |
| anaerobic | yes | 68.058 | no |
| aerobic | no | 87.648 | no |
| halophile | no | 81.442 | no |
| spore-forming | no | 95.366 | no |
| glucose-util | yes | 83.183 | no |
| thermophile | yes | 99.308 | yes |
| glucose-ferment | no | 71.227 | no |
External links
@ref: 20960
culture collection no.: DSM 28986, JCM 30201
straininfo link
- @ref: 87983
- straininfo: 405726
literature
- topic: Metabolism
- Pubmed-ID: 25488256
- title: Use of lectins to in situ visualize glycoconjugates of extracellular polymeric substances in acidophilic archaeal biofilms.
- authors: Zhang RY, Neu TR, Bellenberg S, Kuhlicke U, Sand W, Vera M
- journal: Microb Biotechnol
- DOI: 10.1111/1751-7915.12188
- year: 2014
- mesh: Archaea/growth & development/*metabolism/*physiology, Biofilms/*growth & development, Biopolymers/*analysis, Glycoconjugates/*analysis, Iron/metabolism, Lectins/*metabolism, Microscopy, Fluorescence, Protein Binding, Sulfides/metabolism
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 20960 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28986 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28986) | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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 | |
| 87983 | 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-ID405726.1 |