Strain identifier
BacDive ID: 3954
Type strain:
Species: Desulfobacter curvatus
Strain Designation: AcRM3
Strain history: <- F. Widdel, AcRM3
NCBI tax ID(s): 1121396 (strain), 2290 (species)
General
@ref: 1365
BacDive-ID: 3954
DSM-Number: 3379
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Desulfobacter curvatus AcRM3 is an anaerobe, mesophilic, motile bacterium that was isolated from marine mud.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1121396 | strain |
2290 | species |
strain history
- @ref: 1365
- history: <- F. Widdel, AcRM3
doi: 10.13145/bacdive3954.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfobacterales
- family: Desulfobacteraceae
- genus: Desulfobacter
- species: Desulfobacter curvatus
- full scientific name: Desulfobacter curvatus Widdel 1988
@ref: 1365
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobacteraceae
genus: Desulfobacter
species: Desulfobacter curvatus
full scientific name: Desulfobacter curvatus Widdel 1988
strain designation: AcRM3
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 95.167 | |
69480 | 99.999 | negative |
Culture and growth conditions
culture medium
- @ref: 1365
- name: DESULFOBACTER MEDIUM (DSMZ Medium 195)
- growth: yes
- link: https://mediadive.dsmz.de/medium/195
- composition: Name: DESULFOBACTER MEDIUM (DSMZ Medium 195) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l Na-acetate x 3 H2O 2.49252 g/l Na2CO3 1.49551 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: 1365
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
1365 | anaerobe | |
69480 | anaerobe | 99.734 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.915 |
Isolation, sampling and environmental information
isolation
- @ref: 1365
- sample type: marine mud
- geographic location: Venice
- country: Italy
- origin.country: ITA
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Terrestrial | #Mud (Sludge) |
#Environmental | #Aquatic | #Sediment |
Safety information
risk assessment
- @ref: 1365
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | D.curvatus 16S ribosomal rRNA | M34413 | 1396 | ena | 2290 |
1365 | Desulfobacter curvatus DSM 3379 16S ribosomal RNA gene, partial sequence | AF418175 | 1523 | ena | 2290 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Desulfobacter curvatus DSM 3379 | GCA_000373985 | scaffold | ncbi | 1121396 |
66792 | Desulfobacter curvatus DSM 3379 | 1121396.3 | wgs | patric | 1121396 |
66792 | Desulfobacter curvatus DSM 3379 | 2515154174 | draft | img | 1121396 |
GC content
- @ref: 1365
- GC-content: 46.1
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 86.467 | no |
flagellated | no | 58.372 | no |
gram-positive | no | 98.73 | no |
anaerobic | yes | 98.753 | yes |
aerobic | no | 96.159 | no |
halophile | no | 77.785 | no |
spore-forming | no | 83.985 | no |
glucose-util | yes | 58.808 | no |
thermophile | no | 97.505 | yes |
glucose-ferment | no | 82.871 | no |
External links
@ref: 1365
culture collection no.: DSM 3379, ATCC 43919
straininfo link
- @ref: 73463
- straininfo: 42125
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
1365 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3379) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-3379 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
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) | |||
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 | |||
73463 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42125.1 | StrainInfo: A central database for resolving microbial strain identifiers |