Strain identifier
BacDive ID: 3949
Type strain: 
Species: Desulfospira joergensenii
Strain Designation: B331
Strain history: <- K. Finster; B331 <- K. Finster {1994}
NCBI tax ID(s): 1265505 (strain), 53329 (species)
version 8.1 (current version)
General
@ref: 3794
BacDive-ID: 3949
DSM-Number: 10085
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Desulfospira joergensenii B331 is an anaerobe, mesophilic, motile bacterium that was isolated from marine surface sediment below sea grass.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 53329 | species |
| 1265505 | strain |
strain history
- @ref: 3794
- history: <- K. Finster; B331 <- K. Finster {1994}
doi: 10.13145/bacdive3949.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfobacterales
- family: Desulfobacteraceae
- genus: Desulfospira
- species: Desulfospira joergensenii
- full scientific name: Desulfospira joergensenii Finster et al. 1997
@ref: 3794
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobacteraceae
genus: Desulfospira
species: Desulfospira joergensenii
full scientific name: Desulfospira joergensenii Finster et al. 1997
strain designation: B331
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 99.387 | |
| 69480 | 99.999 | negative |
colony morphology
- @ref: 3794
- incubation period: 8-14 days
Culture and growth conditions
culture medium
- @ref: 3794
- name: DESULFOBACTERIUM MEDIUM (DSMZ Medium 383)
- growth: yes
- link: https://mediadive.dsmz.de/medium/383
- composition: Name: DESULFOBACTERIUM MEDIUM (DSMZ Medium 383) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l Na-pyruvate 2.49252 g/l Na2CO3 0.997009 g/l KCl 0.498504 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 Thiamine HCl 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 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: 3794
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 3794 | anaerobe | |
| 69480 | anaerobe | 98.431 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.136 |
Isolation, sampling and environmental information
isolation
- @ref: 3794
- sample type: marine surface sediment below sea grass
- geographic location: Arcachon Bay
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Sediment |
| #Host | #Algae |
taxonmaps
- @ref: 69479
- File name: preview.99_169549.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_40;96_63282;97_82074;98_111159;99_169549&stattab=map
- Last taxonomy: Desulfospira joergensenii subclade
- 16S sequence: X99637
- Sequence Identity:
- Total samples: 607
- soil counts: 20
- aquatic counts: 567
- animal counts: 8
- plant counts: 12
Safety information
risk assessment
- @ref: 3794
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3794
- description: D.joergensenii 16S rRNA gene
- accession: X99637
- length: 1447
- database: ena
- NCBI tax ID: 53329
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Desulfospira joergensenii DSM 10085 | GCA_000420085 | contig | ncbi | 1265505 |
| 66792 | Desulfospira joergensenii DSM 10085 | 1265505.3 | wgs | patric | 1265505 |
| 66792 | Desulfospira joergensenii DSM 10085 | 2523231085 | draft | img | 1265505 |
GC content
- @ref: 3794
- GC-content: 49.3
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 90.635 | no |
| gram-positive | no | 98.865 | no |
| anaerobic | yes | 95.516 | yes |
| aerobic | no | 95.029 | yes |
| halophile | no | 50 | no |
| spore-forming | no | 87.152 | no |
| thermophile | no | 99.316 | yes |
| glucose-util | yes | 57.914 | no |
| flagellated | no | 52.562 | no |
| glucose-ferment | no | 87.08 | no |
External links
@ref: 3794
culture collection no.: DSM 10085
straininfo link
- @ref: 73458
- straininfo: 43920
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 3794 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10085) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10085 | |
| 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 | |
| 73458 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43920.1 | StrainInfo: A central database for resolving microbial strain identifiers |