Strain identifier
BacDive ID: 4020
Type strain: 
Species: Desulfofustis glycolicus
Strain Designation: PerGlyS
Strain history: <- B. Schink, Universität Konstanz, Fakultät für Biologie, Konstanz, Germany; PerGlyS <- M. Friedrich {1990}
NCBI tax ID(s): 1121409 (strain), 51195 (species)
version 8.1 (current version)
General
@ref: 3689
BacDive-ID: 4020
DSM-Number: 9705
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Desulfofustis glycolicus PerGlyS is an anaerobe, mesophilic, motile bacterium that was isolated from mud.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1121409 | strain |
| 51195 | species |
strain history
- @ref: 3689
- history: <- B. Schink, Universität Konstanz, Fakultät für Biologie, Konstanz, Germany; PerGlyS <- M. Friedrich {1990}
doi: 10.13145/bacdive4020.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfobacterales
- family: Desulfobulbaceae
- genus: Desulfofustis
- species: Desulfofustis glycolicus
- full scientific name: Desulfofustis glycolicus Friedrich et al. 1996
@ref: 3689
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobulbaceae
genus: Desulfofustis
species: Desulfofustis glycolicus
full scientific name: Desulfofustis glycolicus Friedrich et al. 1996
strain designation: PerGlyS
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.225 | |
| 69480 | 99.999 | negative |
Culture and growth conditions
culture medium
- @ref: 3689
- name: DESULFOBACTERIUM MEDIUM (DSMZ Medium 383)
- growth: yes
- link: https://mediadive.dsmz.de/medium/383
- composition: Name: DESULFOBACTERIUM MEDIUM (DSMZ Medium 383; with strain-specific modifications) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l None 0.997009 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 MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l p-Aminobenzoic 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 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: 3689
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 3689 | anaerobe | |
| 69480 | anaerobe | 99.275 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.748 |
Isolation, sampling and environmental information
isolation
- @ref: 3689
- sample type: mud
- geographic location: Venice
- country: Italy
- origin.country: ITA
- continent: Europe
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Mud (Sludge)
Safety information
risk assessment
- @ref: 3689
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3689
- description: D.glycolicus 16S rRNA gene
- accession: X99707
- length: 1547
- database: ena
- NCBI tax ID: 51195
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Desulfofustis glycolicus DSM 9705 | GCA_900130015 | scaffold | ncbi | 1121409 |
| 66792 | Desulfofustis glycolicus DSM 9705 strain DSM 9705 | 1121409.3 | wgs | patric | 1121409 |
| 66792 | Desulfofustis glycolicus DSM 9705 | 2585428080 | draft | img | 1121409 |
GC content
- @ref: 3689
- GC-content: 56.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 86.403 | no |
| flagellated | no | 50 | no |
| gram-positive | no | 98.982 | no |
| anaerobic | yes | 95.96 | yes |
| aerobic | no | 95.676 | yes |
| halophile | no | 87.619 | no |
| spore-forming | no | 92.503 | no |
| thermophile | no | 99.614 | no |
| glucose-util | no | 66.208 | no |
| glucose-ferment | no | 86.173 | no |
External links
@ref: 3689
culture collection no.: DSM 9705
straininfo link
- @ref: 73525
- straininfo: 47038
literature
- topic: Phylogeny
- Pubmed-ID: 8863436
- title: Phylogenetic positions of Desulfofustis glycolicus gen. nov., sp. nov., and Syntrophobotulus glycolicus gen. nov., sp. nov., two new strict anaerobes growing with glycolic acid.
- authors: Friedrich M, Springer N, Ludwig W, Schink B
- journal: Int J Syst Bacteriol
- DOI: 10.1099/00207713-46-4-1065
- year: 1996
- mesh: Bacteria, Anaerobic/*classification/metabolism, Base Composition, Glycolates/*metabolism, Phylogeny
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3689 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9705) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9705 | |||
| 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 | |
| 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 | |||
| 73525 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47038.1 | StrainInfo: A central database for resolving microbial strain identifiers |