Strain identifier
BacDive ID: 4002
Type strain: 
Species: Desulfobulbus elongatus
Strain Designation: FP
Strain history: <- E. Samain, FP
NCBI tax ID(s): 1121402 (strain), 53332 (species)
version 9.1 (current version)
General
@ref: 1241
BacDive-ID: 4002
DSM-Number: 2908
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-negative
description: Desulfobulbus elongatus FP is an anaerobe, Gram-negative bacterium that was isolated from mesophilic digester.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 53332 | species |
| 1121402 | strain |
strain history
- @ref: 1241
- history: <- E. Samain, FP
doi: 10.13145/bacdive4002.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfobacterales
- family: Desulfobulbaceae
- genus: Desulfobulbus
- species: Desulfobulbus elongatus
- full scientific name: Desulfobulbus elongatus Samain et al. 1985
@ref: 1241
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobulbaceae
genus: Desulfobulbus
species: Desulfobulbus elongatus
full scientific name: Desulfobulbus elongatus Samain et al. 1985
strain designation: FP
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98.017
Culture and growth conditions
culture medium
- @ref: 1241
- name: DESULFOBULBUS SP. MEDIUM (FRESHWATER) (DSMZ Medium 194)
- growth: yes
- link: https://mediadive.dsmz.de/medium/194
- composition: Name: DESULFOBULBUS SP. MEDIUM (FRESHWATER) (DSMZ Medium 194) Composition: Na2SO4 2.99103 g/l Na2CO3 1.49551 g/l Na-propionate 1.49551 g/l NaCl 0.997009 g/l KCl 0.498504 g/l MgCl2 x 6 H2O 0.398804 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 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 Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 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: 1241
- growth: positive
- type: growth
- temperature: 35
Physiology and metabolism
oxygen tolerance
- @ref: 1241
- oxygen tolerance: anaerobe
spore formation
- @ref: 69481
- spore formation: no
- confidence: 94
Isolation, sampling and environmental information
isolation
- @ref: 1241
- sample type: mesophilic digester
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
- Cat1: #Engineered
- Cat2: #Biodegradation
taxonmaps
- @ref: 69479
- File name: preview.99_597.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_128;96_380;97_428;98_488;99_597&stattab=map
- Last taxonomy: Desulfobulbus elongatus subclade
- 16S sequence: X95180
- Sequence Identity:
- Total samples: 879
- soil counts: 77
- aquatic counts: 638
- animal counts: 112
- plant counts: 52
Safety information
risk assessment
- @ref: 1241
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 1241
- description: D.elongatus 16S ribosomal RNA
- accession: X95180
- length: 1454
- database: nuccore
- NCBI tax ID: 53332
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Desulfobulbus elongatus DSM 2908 | GCA_000621145 | scaffold | ncbi | 1121402 |
| 66792 | Desulfobulbus elongatus DSM 2908 | 1121402.3 | wgs | patric | 1121402 |
| 66792 | Desulfobulbus elongatus DSM 2908 | 2556921601 | draft | img | 1121402 |
GC content
- @ref: 1241
- GC-content: 59.0
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 94 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98.017 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 77.146 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 80.468 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 85.023 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 91.158 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 72.485 | no |
External links
@ref: 1241
culture collection no.: DSM 2908, ATCC 43118
straininfo link
- @ref: 73507
- straininfo: 45109
literature
- topic: Phylogeny
- Pubmed-ID: 27902225
- title: Desulfobulbus oligotrophicus sp. nov., a sulfate-reducing and propionate-oxidizing bacterium isolated from a municipal anaerobic sewage sludge digester.
- authors: El Houari A, Ranchou-Peyruse M, Ranchou-Peyruse A, Dakdaki A, Guignard M, Idouhammou L, Bennisse R, Bouterfass R, Guyoneaud R, Qatibi AI
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.001615
- year: 2017
- mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Deltaproteobacteria/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Morocco, Oxidation-Reduction, *Phylogeny, Propionates/*metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Sulfur-Reducing Bacteria/classification/genetics/isolation & purification
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 1241 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2908) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-2908 | |
| 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 | |
| 73507 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45109.1 | StrainInfo: A central database for resolving microbial strain identifiers |