Strain identifier
BacDive ID: 4135
Type strain: 
Species: Desulfovibrio aminophilus
Strain Designation: ALA-3
Strain history: <- J.-L. Garcia, Université de Provence, Marseille, France <- S. Baena {1997}
NCBI tax ID(s): 1121440 (strain), 81425 (species)
version 8.1 (current version)
General
@ref: 4656
BacDive-ID: 4135
DSM-Number: 12254
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Desulfovibrio aminophilus ALA-3 is an anaerobe, mesophilic, motile bacterium that was isolated from anaerobic lagoon of dairy wastewater treatment plant.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1121440 | strain |
| 81425 | species |
strain history
- @ref: 4656
- history: <- J.-L. Garcia, Université de Provence, Marseille, France <- S. Baena {1997}
doi: 10.13145/bacdive4135.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfovibrionales
- family: Desulfovibrionaceae
- genus: Desulfovibrio
- species: Desulfovibrio aminophilus
- full scientific name: Desulfovibrio aminophilus Baena et al. 1999
synonyms
- @ref: 20215
- synonym: Aminidesulfovibrio aminophilus
@ref: 4656
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfovibrionales
family: Desulfovibrionaceae
genus: Desulfovibrio
species: Desulfovibrio aminophilus
full scientific name: Desulfovibrio aminophilus Baena et al. 1999
strain designation: ALA-3
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 92.472 | |
| 69480 | 99.99 | negative |
Culture and growth conditions
culture medium
- @ref: 4656
- name: DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63)
- growth: yes
- link: https://mediadive.dsmz.de/medium/63
- composition: Name: DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63) Composition: MgSO4 x 7 H2O 2.0 g/l Na-DL-lactate 2.0 g/l NH4Cl 1.0 g/l Yeast extract 1.0 g/l Na2SO4 1.0 g/l FeSO4 x 7 H2O 0.5 g/l K2HPO4 0.5 g/l CaCl2 x 2 H2O 0.1 g/l Na-thioglycolate 0.1 g/l Ascorbic acid 0.1 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
- @ref: 4656
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4656 | anaerobe | |
| 69480 | anaerobe | 99.998 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 95 |
| 69480 | no | 99.751 |
Isolation, sampling and environmental information
isolation
- @ref: 4656
- sample type: anaerobic lagoon of dairy wastewater treatment plant
- country: Colombia
- origin.country: COL
- continent: Middle and South America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Dairy product |
| #Engineered | #Waste | #Water treatment plant |
| #Condition | #Anoxic (anaerobic) |
taxonmaps
- @ref: 69479
- File name: preview.99_134237.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15811;96_66;97_69;98_74;99_134237&stattab=map
- Last taxonomy: Desulfovibrio aminophilus subclade
- 16S sequence: AF067964
- Sequence Identity:
- Total samples: 43
- soil counts: 1
- aquatic counts: 40
- animal counts: 2
Safety information
risk assessment
- @ref: 4656
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4656
- description: Desulfovibrio aminophilus 16S ribosomal RNA gene, partial sequence
- accession: AF067964
- length: 1530
- database: ena
- NCBI tax ID: 81425
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Desulfovibrio aminophilus DSM 12254 | GCA_000422565 | scaffold | ncbi | 1121440 |
| 66792 | Desulfovibrio aminophilus DSM 12254 | 1121440.3 | wgs | patric | 1121440 |
| 66792 | Desulfovibrio aminophilus DSM 12254 | 2524023062 | draft | img | 1121440 |
| 66792 | Desulfovibrio aminophilus DSM 12254 | GCA_023660105 | contig | ncbi | 81425 |
GC content
- @ref: 4656
- GC-content: 66
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 95 | no |
| motile | yes | 92.465 | no |
| flagellated | no | 51.392 | no |
| gram-positive | no | 99.418 | no |
| anaerobic | yes | 99.534 | yes |
| aerobic | no | 98.858 | yes |
| halophile | no | 78.424 | no |
| spore-forming | no | 96.056 | no |
| thermophile | no | 93.727 | yes |
| glucose-util | no | 70.021 | no |
| glucose-ferment | no | 83.872 | no |
External links
@ref: 4656
culture collection no.: DSM 12254
straininfo link
- @ref: 73638
- straininfo: 49256
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 9924817 | Desulfovibrio aminophilus sp. nov., a novel amino acid degrading and sulfate reducing bacterium from an anaerobic dairy wastewater lagoon. | Baena S, Fardeau ML, Labat M, Ollivier B, Garcia JL, Patel BK | Syst Appl Microbiol | 10.1016/S0723-2020(98)80061-1 | 1998 | Amino Acids/metabolism, Anaerobiosis, DNA, Bacterial/genetics, *Desulfovibrio/classification/genetics/isolation & purification/physiology, Environmental Microbiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sewage/microbiology, Sulfates/chemistry/metabolism, Temperature | Metabolism |
| Enzymology | 16290059 | Biochemical and spectroscopic characterization of an aldehyde oxidoreductase isolated from Desulfovibrio aminophilus. | Thapper A, Rivas MG, Brondino CD, Ollivier B, Fauque G, Moura I, Moura JJ | J Inorg Biochem | 10.1016/j.jinorgbio.2005.09.013 | 2005 | Aldehyde Oxidoreductases/*chemistry, Coenzymes/chemistry, Desulfovibrio/chemistry/*enzymology, Electron Spin Resonance Spectroscopy/methods, Iron-Sulfur Proteins/chemistry, Kinetics, Metalloproteins/chemistry, Molecular Weight, Molybdenum Cofactors, Oxidation-Reduction, Pteridines/chemistry, Species Specificity, Spectrophotometry, Ultraviolet | Phylogeny |
| Enzymology | 18365091 | Purification and preliminary characterization of tetraheme cytochrome c3 and adenylylsulfate reductase from the peptidolytic sulfate-reducing bacterium Desulfovibrio aminophilus DSM 12254. | Lopez-Cortes A, Bursakov S, Figueiredo A, Thapper AE, Todorovic S, Moura JJ, Ollivier B, Moura I, Fauque G | Bioinorg Chem Appl | 10.1155/BCA.2005.81 | 2005 | ||
| Phylogeny | 19699535 | Isolation and characterization of a new Cu-Fe protein from Desulfovibrio aminophilus DSM12254. | Rivas MG, Mota CS, Pauleta SR, Carepo MS, Folgosa F, Andrade SL, Fauque G, Pereira AS, Tavares P, Calvete JJ, Moura I, Moura JJ | J Inorg Biochem | 10.1016/j.jinorgbio.2009.04.014 | 2009 | Bacterial Proteins/*chemistry/genetics/*isolation & purification/metabolism, *Copper, Desulfovibrio/*chemistry/genetics/metabolism, Drug Resistance, Bacterial/drug effects/physiology, *Iron, Metalloproteins/*chemistry/genetics/*isolation & purification/metabolism, Molybdenum/chemistry/pharmacology, Protein Structure, Quaternary/physiology | Metabolism |
| Metabolism | 26027356 | [Anaerobic bacteria involved in the degradation of aromatic sulfonates to methane]. | Shcherbakova VA, Laurinavichyus KS, Chuvil'skaya NA, Ryzhmanova YV, Akimenko VK | Prikl Biokhim Mikrobiol | 10.7868/s0555109915020191 | 2015 | Bacteria, Anaerobic/metabolism, Benzenesulfonates/*metabolism, Clostridium/genetics/isolation & purification/*metabolism, Desulfovibrio/genetics/isolation & purification/*metabolism, Methane/*metabolism, Microbial Consortia, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S | Phylogeny |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 4656 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12254) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12254 | |
| 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) | |
| 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 | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
| 73638 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49256.1 | StrainInfo: A central database for resolving microbial strain identifiers |