Strain identifier
BacDive ID: 3985
Type strain:
Species: Desulfofaba hansenii
Strain Designation: P1
Strain history: <- K. Finster, University of Aarhus, Department of Microbial Ecology, Institute of Biological Sciences, Denmark; P1 <- K. Finster {1997}
NCBI tax ID(s): 157842 (species)
General
@ref: 4775
BacDive-ID: 3985
DSM-Number: 12642
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Desulfofaba hansenii P1 is an anaerobe, mesophilic, motile bacterium that was isolated from surface-sterilized roots of the marine macrophyte Zostera marina.
NCBI tax id
- NCBI tax id: 157842
- Matching level: species
strain history
- @ref: 4775
- history: <- K. Finster, University of Aarhus, Department of Microbial Ecology, Institute of Biological Sciences, Denmark; P1 <- K. Finster {1997}
doi: 10.13145/bacdive3985.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfobacterales
- family: Desulfobacteraceae
- genus: Desulfofaba
- species: Desulfofaba hansenii
- full scientific name: Desulfofaba hansenii (Finster et al. 2001) Abildgaard et al. 2004
synonyms
- @ref: 20215
- synonym: Desulfomusa hansenii
@ref: 4775
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobacteraceae
genus: Desulfofaba
species: Desulfofaba hansenii
full scientific name: Desulfofaba hansenii (Finster et al. 2001) Abildgaard et al. 2004
strain designation: P1
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 97.617 | |
69480 | 99.999 | negative |
Culture and growth conditions
culture medium
- @ref: 4775
- name: DESULFOMUSA HANSENII MEDIUM (DSMZ Medium 916)
- growth: yes
- link: https://mediadive.dsmz.de/medium/916
- composition: Name: DESULFOFABA HANSENII MEDIUM (DSMZ Medium 916) Composition: NaCl 19.8412 g/l MgCl2 x 6 H2O 10.5159 g/l CaCl2 x 2 H2O 1.50794 g/l Na2SO4 1.40873 g/l Na2CO3 1.24008 g/l Na-propionate 0.952381 g/l KCl 0.664682 g/l FeCl2 x 4 H2O 0.515873 g/l NH4Cl 0.0992062 g/l MgSO4 x 7 H2O 0.0198412 g/l KH2PO4 0.00992062 g/l HCl 0.00248016 g/l Sodium resazurin 0.000496032 g/l NaOH 0.000496032 g/l CoCl2 x 6 H2O 0.000188492 g/l Pyridoxine hydrochloride 9.92064e-05 g/l MnCl2 x 4 H2O 9.92064e-05 g/l ZnCl2 6.94444e-05 g/l Calcium D-(+)-pantothenate 4.96032e-05 g/l (DL)-alpha-Lipoic acid 4.96032e-05 g/l Thiamine HCl 4.96032e-05 g/l Riboflavin 4.96032e-05 g/l Nicotinic acid 4.96032e-05 g/l p-Aminobenzoic acid 4.96032e-05 g/l Na2MoO4 x 2 H2O 3.57143e-05 g/l NiCl2 x 6 H2O 2.38095e-05 g/l Folic acid 1.98413e-05 g/l Biotin 1.98413e-05 g/l H3BO3 5.95238e-06 g/l Na2WO4 x 2 H2O 3.96825e-06 g/l Na2SeO3 x 5 H2O 2.97619e-06 g/l CuCl2 x 2 H2O 1.98413e-06 g/l Vitamin B12 9.92064e-07 g/l Distilled water
culture temp
- @ref: 4775
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
4775 | anaerobe | |
69480 | anaerobe | 98.648 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.932 |
Isolation, sampling and environmental information
isolation
- @ref: 4775
- sample type: surface-sterilized roots of the marine macrophyte Zostera marina
- host species: Zostera marina
- geographic location: Aarhus Bay
- country: Denmark
- origin.country: DNK
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Aquatic plant |
#Host Body-Site | #Plant | #Root (Rhizome) |
#Host Body-Site | #Plant | #Sterilized plant part |
taxonmaps
- @ref: 69479
- File name: preview.99_130401.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3074;96_44752;97_65396;98_87296;99_130401&stattab=map
- Last taxonomy: Desulfofaba hansenii subclade
- 16S sequence: AF321820
- Sequence Identity:
- Total samples: 290
- soil counts: 1
- aquatic counts: 288
- plant counts: 1
Safety information
risk assessment
- @ref: 4775
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4775
- description: Desulfomusa hansenii 16S ribosomal RNA gene, partial sequence
- accession: AF321820
- length: 1519
- database: ena
- NCBI tax ID: 157842
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Desulfofaba hansenii strain P1 | 157842.3 | wgs | patric | 157842 |
66792 | Desulfofaba hansenii DSM 12642 | 2740891818 | draft | img | 157842 |
GC content
- @ref: 4775
- GC-content: 53.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 79.104 | no |
gram-positive | no | 99.132 | no |
anaerobic | yes | 96.734 | yes |
aerobic | no | 95.056 | no |
halophile | no | 72.801 | no |
spore-forming | no | 80.321 | no |
glucose-util | no | 50 | no |
flagellated | no | 57.87 | no |
thermophile | no | 98.891 | no |
glucose-ferment | no | 86.236 | no |
External links
@ref: 4775
culture collection no.: DSM 12642, ATCC 700811
straininfo link
- @ref: 73491
- straininfo: 88566
literature
- topic: Phylogeny
- Pubmed-ID: 11760947
- title: Desulfomusa hansenii gen. nov., sp. nov., a novel marine propionate-degrading, sulfate-reducing bacterium isolated from Zostera marina roots.
- authors: Finster K, Thomsen TR, Ramsing NB
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-51-6-2055
- year: 2001
- mesh: Biodegradation, Environmental, DNA, Ribosomal/analysis, Deltaproteobacteria/*classification/genetics/isolation & purification/physiology, Hydrogensulfite Reductase, Molecular Sequence Data, Oxidation-Reduction, Oxidoreductases Acting on Sulfur Group Donors/genetics, Plant Roots/*microbiology, Poaceae/*microbiology, Polymerase Chain Reaction, Propionates/*metabolism, RNA, Ribosomal/genetics, Seawater, Sulfates/*metabolism
- topic2: Enzymology
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
4775 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12642) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12642 | |||
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 | |
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 | |||
73491 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID88566.1 | StrainInfo: A central database for resolving microbial strain identifiers |