Strain identifier
BacDive ID: 23490
Type strain: 
Species: Acidocella aromatica
Strain Designation: PFBC
Strain history: <- D. B. Johnson, Bangor Univ., Wales, U.K.; PFBC <- D. B. Johnson and S. Kimura {2004}
NCBI tax ID(s): 1303579 (species)
version 8.1 (current version)
General
@ref: 20235
BacDive-ID: 23490
DSM-Number: 27026
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Acidocella aromatica PFBC is a mesophilic, Gram-negative bacterium that was isolated from enrichment culture from acid mine drainage.
NCBI tax id
- NCBI tax id: 1303579
- Matching level: species
strain history
- @ref: 20235
- history: <- D. B. Johnson, Bangor Univ., Wales, U.K.; PFBC <- D. B. Johnson and S. Kimura {2004}
doi: 10.13145/bacdive23490.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodospirillales
- family: Acetobacteraceae
- genus: Acidocella
- species: Acidocella aromatica
- full scientific name: Acidocella aromatica Jones et al. 2021
@ref: 20235
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Acidocella
species: Acidocella aromatica
full scientific name: Acidocella aromatica Jones et al. 2013
strain designation: PFBC
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.946
Culture and growth conditions
culture medium
- @ref: 20235
- name: ACIDITHIOBACILLUS FERRIVORANS MEDIUM (DSMZ Medium 1234)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1234
- composition: Name: ACIDITHIOBACILLUS FERRIVORANS MEDIUM (DSMZ Medium 1234; with strain-specific modifications) Composition: (NH4)2SO4 2.9703 g/l Na2SO4 1.38614 g/l D-Fructose 0.891089 g/l KCl 0.0990099 g/l K2HPO4 0.049505 g/l MgSO4 x 7 H2O 0.029703 g/l Ca(NO3)2 x 4 H2O 0.019802 g/l (NH4)2Ni(SO4)2 x 6 H2O 0.019802 g/l Nitrilotriacetic acid 0.0148515 g/l NaCl 0.00990099 g/l MnSO4 x H2O 0.00495049 g/l CoSO4 x 7 H2O 0.00178218 g/l ZnSO4 x 7 H2O 0.00178218 g/l CaCl2 x 2 H2O 0.000990099 g/l NiCl2 x 6 H2O 0.00029703 g/l AlK(SO4)2 x 12 H2O 0.00019802 g/l H3BO3 9.90099e-05 g/l CuSO4 x 5 H2O 9.90099e-05 g/l Na2MoO4 x 2 H2O 9.90099e-05 g/l Na2WO4 x 2 H2O 3.9604e-06 g/l Na2SeO3 x 5 H2O 2.9703e-06 g/l Distilled water
culture temp
- @ref: 20235
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.987 |
Isolation, sampling and environmental information
isolation
- @ref: 20235
- sample type: enrichment culture from acid mine drainage
- geographic location: Anglesey
- country: United Kingdom
- origin.country: GBR
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Other | #Mine |
| #Engineered | #Laboratory | #Lab enrichment |
| #Engineered | #Waste | #Wastewater |
taxonmaps
- @ref: 69479
- File name: preview.99_25528.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_3146;97_15494;98_19190;99_25528&stattab=map
- Last taxonomy: Acidocella aromatica subclade
- 16S sequence: KC590088
- Sequence Identity:
- Total samples: 4
- soil counts: 1
- aquatic counts: 2
- plant counts: 1
Sequence information
16S sequences
- @ref: 20235
- description: Acidocella aromatica strain PFBC 16S ribosomal RNA gene, complete sequence
- accession: KC590088
- length: 1249
- database: ena
- NCBI tax ID: 1303579
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acidocella aromatica DSM 27026 | GCA_014201825 | contig | ncbi | 1303579 |
| 66792 | Acidocella aromatica strain DSM 27026 | 1303579.3 | wgs | patric | 1303579 |
| 66792 | Acidocella aromatica DSM 27026 | 2861273687 | draft | img | 1303579 |
GC content
- @ref: 20235
- GC-content: 61.6-63.9
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 83.143 | no |
| gram-positive | no | 98.331 | no |
| anaerobic | no | 93.406 | no |
| halophile | no | 93.967 | no |
| spore-forming | no | 93.977 | no |
| thermophile | no | 77.938 | yes |
| glucose-util | yes | 57.676 | no |
| flagellated | no | 64.715 | no |
| aerobic | yes | 69.964 | no |
| glucose-ferment | no | 93.07 | no |
External links
@ref: 20235
culture collection no.: DSM 27026, NCCB 100456
straininfo link
- @ref: 87611
- straininfo: 398182
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 | |
| 20235 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27026 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27026) | |
| 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 | |
| 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 | |
| 87611 | 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-ID398182.1 |