Strain identifier
BacDive ID: 4124
Type strain:
Species: Pseudodesulfovibrio aespoeensis
Strain Designation: ASPO-2
Strain history: <- M. Motamedi, Göteborg University, Department of General and Marine Microbiology, Sweden; Aspo-2 <- K. Pedersen and N. Jahromi {1993}
NCBI tax ID(s): 643562 (strain), 182210 (species)
General
@ref: 3989
BacDive-ID: 4124
DSM-Number: 10631
keywords: genome sequence, Bacteria, anaerobe, mesophilic
description: Pseudodesulfovibrio aespoeensis ASPO-2 is an anaerobe, mesophilic bacterium that was isolated from granitic rock aquifer at 600 m depth.
NCBI tax id
NCBI tax id | Matching level |
---|---|
182210 | species |
643562 | strain |
strain history
- @ref: 3989
- history: <- M. Motamedi, Göteborg University, Department of General and Marine Microbiology, Sweden; Aspo-2 <- K. Pedersen and N. Jahromi {1993}
doi: 10.13145/bacdive4124.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfovibrionales
- family: Desulfovibrionaceae
- genus: Pseudodesulfovibrio
- species: Pseudodesulfovibrio aespoeensis
- full scientific name: Pseudodesulfovibrio aespoeensis (Motamedi and Pedersen 1998) Cao et al. 2016
synonyms
- @ref: 20215
- synonym: Desulfovibrio aespoeensis
@ref: 3989
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfovibrionales
family: Desulfovibrionaceae
genus: Pseudodesulfovibrio
species: Pseudodesulfovibrio aespoeensis
full scientific name: Pseudodesulfovibrio aespoeensis (Motamedi and Pedersen 1998) Cao et al. 2016
strain designation: ASPO-2
type strain: yes
Culture and growth conditions
culture medium
- @ref: 3989
- name: DESULFOBACTER MEDIUM (DSMZ Medium 193)
- growth: yes
- link: https://mediadive.dsmz.de/medium/193
- composition: Name: DESULFOBACTER MEDIUM (DSMZ Medium 193; with strain-specific modifications) Composition: NaCl 6.97906 g/l Na2SO4 2.99102 g/l Na-L-lactate 2.49252 g/l Na2CO3 1.49551 g/l MgCl2 x 6 H2O 1.29611 g/l Yeast extract 0.997009 g/l KCl 0.498505 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299102 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 Sodium resazurin 0.000498505 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 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: 3989
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 3989
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 3989
- sample type: granitic rock aquifer at 600 m depth
- geographic location: Äspö Island
- country: Sweden
- origin.country: SWE
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Groundwater |
#Environmental | #Terrestrial | #Geologic |
Safety information
risk assessment
- @ref: 3989
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudodesulfovibrio aespoeensis Aspo-2 | GCA_000176915 | complete | ncbi | 643562 |
66792 | Pseudodesulfovibrio aespoeensis Aspo-2, DSM 10631 | 649633037 | complete | img | 643562 |
GC content
- @ref: 3989
- GC-content: 61.5
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 90.73 | no |
flagellated | yes | 51.63 | no |
gram-positive | no | 99.384 | no |
anaerobic | yes | 99.588 | yes |
aerobic | no | 98.78 | no |
halophile | no | 65.156 | no |
spore-forming | no | 94.71 | no |
thermophile | no | 95.104 | yes |
glucose-util | no | 72.968 | no |
glucose-ferment | no | 79.406 | no |
External links
@ref: 3989
culture collection no.: DSM 10631, ATCC 700646
straininfo link
- @ref: 73627
- straininfo: 46246
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 9542102 | Desulfovibrio aespoeensis sp. nov., a mesophilic sulfate-reducing bacterium from deep groundwater at Aspo hard rock laboratory, Sweden. | Motamedi M, Pedersen K | Int J Syst Bacteriol | 10.1099/00207713-48-1-311 | 1998 | Cell Wall/ultrastructure, Desulfovibrio/*classification/genetics/*metabolism, Fresh Water/*microbiology, Genes, Bacterial/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, RNA, Bacterial/analysis, RNA, Ribosomal, 16S/analysis, Sulfates/*metabolism, Sweden | Metabolism |
Genetics | 24874683 | Complete Genome Sequence of the Subsurface, Mesophilic Sulfate-Reducing Bacterium Desulfovibrio aespoeensis Aspo-2. | Pedersen K, Bengtsson A, Edlund J, Rabe L, Hazen T, Chakraborty R, Goodwin L, Shapiro N | Genome Announc | 10.1128/genomeA.00509-14 | 2014 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3989 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10631) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10631 | |||
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 | |||
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
73627 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID46246.1 | StrainInfo: A central database for resolving microbial strain identifiers |