Strain identifier
BacDive ID: 3984
Type strain:
Species: Desulfofaba gelida
Strain Designation: PSv29
Strain history: <- C. Knoblauch, Max-Planck-Inst. Marine Microbiology, Bremen, Germany; PSv29 <- C. Knoblauch {1997}
NCBI tax ID(s): 84981 (species)
General
@ref: 4705
BacDive-ID: 3984
DSM-Number: 12344
keywords: 16S sequence, Bacteria, anaerobe, psychrophilic, Gram-negative
description: Desulfofaba gelida PSv29 is an anaerobe, psychrophilic, Gram-negative bacterium that was isolated from marine mud.
NCBI tax id
- NCBI tax id: 84981
- Matching level: species
strain history
- @ref: 4705
- history: <- C. Knoblauch, Max-Planck-Inst. Marine Microbiology, Bremen, Germany; PSv29 <- C. Knoblauch {1997}
doi: 10.13145/bacdive3984.20230509.8.1
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 gelida
- full scientific name: Desulfofaba gelida Knoblauch et al. 1999
@ref: 4705
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfobacterales
family: Desulfobacteraceae
genus: Desulfofaba
species: Desulfofaba gelida
full scientific name: Desulfofaba gelida Knoblauch et al. 1999
strain designation: PSv29
type strain: yes
Morphology
cell morphology
- @ref: 23372
- gram stain: negative
- cell length: 5.4-6.2 µm
- cell width: 3.1 µm
colony morphology
- @ref: 4705
- incubation period: >14 days
Culture and growth conditions
culture medium
- @ref: 4705
- name: DESULFOFRIGUS MEDIUM (DSMZ Medium 861)
- growth: yes
- link: https://mediadive.dsmz.de/medium/861
- composition: Name: DESULFOFRIGUS MEDIUM (DSMZ Medium 861; with strain-specific modifications) Composition: NaCl 19.9203 g/l Na2SO4 3.98406 g/l MgCl2 x 6 H2O 2.98805 g/l Na-propionate 1.49402 g/l Na2CO3 1.49402 g/l KCl 0.498008 g/l Na2S x 9 H2O 0.298805 g/l NH4Cl 0.249004 g/l KH2PO4 0.199203 g/l CaCl2 x 2 H2O 0.149402 g/l KBr 0.0896414 g/l Na2S2O4 0.0498008 g/l NaHCO3 0.0498008 g/l HCl 0.00249004 g/l FeCl2 x 4 H2O 0.00149402 g/l NaOH 0.000498008 g/l Sodium resazurin 0.000498008 g/l CoCl2 x 6 H2O 0.000189243 g/l Pyridoxine hydrochloride 9.96016e-05 g/l MnCl2 x 4 H2O 9.96016e-05 g/l ZnCl2 6.97211e-05 g/l p-Aminobenzoic acid 4.98008e-05 g/l Calcium D-(+)-pantothenate 4.98008e-05 g/l Nicotinic acid 4.98008e-05 g/l Riboflavin 4.98008e-05 g/l Thiamine HCl 4.98008e-05 g/l (DL)-alpha-Lipoic acid 4.98008e-05 g/l Na2MoO4 x 2 H2O 3.58566e-05 g/l NiCl2 x 6 H2O 2.39044e-05 g/l Folic acid 1.99203e-05 g/l Biotin 1.99203e-05 g/l H3BO3 5.9761e-06 g/l Na2WO4 x 2 H2O 3.98406e-06 g/l Na2SeO3 x 5 H2O 2.98805e-06 g/l CuCl2 x 2 H2O 1.99203e-06 g/l Vitamin B12 9.96016e-07 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
4705 | positive | growth | 5 | psychrophilic |
23372 | positive | growth | -1.8-10 | psychrophilic |
23372 | positive | optimum | 7 | psychrophilic |
culture pH
- @ref: 23372
- ability: positive
- type: optimum
- pH: 7.1-7.6
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
4705 | anaerobe |
23372 | obligate anaerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
23372 | NaCl | positive | optimum | 1.4-2.5 % |
23372 | MgCl2 | positive | growth | 0.015-2.5 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23372 | 33403 | elemental sulfur | - | electron acceptor |
23372 | 30089 | acetate | - | electron donor |
23372 | 27689 | decanoate | - | electron donor |
23372 | 7896 | hexadecanoate | - | electron donor |
23372 | 17822 | serine | - | electron donor |
23372 | 31011 | valerate | - | electron donor |
23372 | 24996 | lactate | - | fermentation |
23372 | 25115 | malate | - | fermentation |
23372 | 33403 | elemental sulfur | - | reduction |
23372 | 17632 | nitrate | - | reduction |
23372 | 16301 | nitrite | - | reduction |
23372 | 16449 | alanine | + | carbon source |
23372 | 28885 | butanol | + | carbon source |
23372 | 17968 | butyrate | + | carbon source |
23372 | 16236 | ethanol | + | carbon source |
23372 | 15740 | formate | + | carbon source |
23372 | 29806 | fumarate | + | carbon source |
23372 | 17754 | glycerol | + | carbon source |
23372 | 24996 | lactate | + | carbon source |
23372 | 25115 | malate | + | carbon source |
23372 | 28831 | propanol | + | carbon source |
23372 | 17272 | propionate | + | carbon source |
23372 | 15361 | pyruvate | + | carbon source |
23372 | 30031 | succinate | + | carbon source |
23372 | 16189 | sulfate | + | electron acceptor |
23372 | 17359 | sulfite | + | electron acceptor |
23372 | 16094 | thiosulfate | + | electron acceptor |
23372 | 16449 | alanine | + | electron donor |
23372 | 28885 | butanol | + | electron donor |
23372 | 17968 | butyrate | + | electron donor |
23372 | 16236 | ethanol | + | electron donor |
23372 | 15740 | formate | + | electron donor |
23372 | 29806 | fumarate | + | electron donor |
23372 | 24996 | lactate | + | electron donor |
23372 | 25115 | malate | + | electron donor |
23372 | 28831 | propanol | + | electron donor |
23372 | 17272 | propionate | + | electron donor |
23372 | 15361 | pyruvate | + | electron donor |
23372 | 30031 | succinate | + | electron donor |
23372 | 29806 | fumarate | + | fermentation |
23372 | 15361 | pyruvate | + | fermentation |
23372 | 17754 | glycerol | +/- | electron donor |
23372 | 15428 | glycine | +/- | electron donor |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
4705 | marine mud | Spitsbergen, Hornsund | Norway | NOR | Europe |
23372 | permanently cold marine sediments |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Sediment |
#Condition | #Psychrophilic (<10°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_101284.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3074;96_41069;97_52414;98_69175;99_101284&stattab=map
- Last taxonomy: Desulfofaba gelida subclade
- 16S sequence: AF099063
- Sequence Identity:
- Total samples: 411
- soil counts: 6
- aquatic counts: 400
- animal counts: 1
- plant counts: 4
Safety information
risk assessment
- @ref: 4705
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4705
- description: Desulfofaba gelida strain PSv29 16S ribosomal RNA gene, partial sequence
- accession: AF099063
- length: 1489
- database: ena
- NCBI tax ID: 84981
GC content
@ref | GC-content | method |
---|---|---|
4705 | 52.8 | high performance liquid chromatography (HPLC) |
23372 | 52.5 | high performance liquid chromatography (HPLC) |
External links
@ref: 4705
culture collection no.: DSM 12344
straininfo link
- @ref: 73490
- straininfo: 49274
literature
- topic: Phylogeny
- Pubmed-ID: 10555345
- title: Psychrophilic sulfate-reducing bacteria isolated from permanently cold arctic marine sediments: description of Desulfofrigus oceanense gen. nov., sp. nov., Desulfofrigus fragile sp. nov., Desulfofaba gelida gen. nov., sp. nov., Desulfotalea psychrophila gen. nov., sp. nov. and Desulfotalea arctica sp. nov.
- authors: Knoblauch C, Sahm K, Jorgensen BB
- journal: Int J Syst Bacteriol
- DOI: 10.1099/00207713-49-4-1631
- year: 1999
- mesh: Arctic Regions, Bacterial Typing Techniques, Base Composition, Cold Temperature, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Deltaproteobacteria/*classification/isolation & purification, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sulfur-Reducing Bacteria/*classification/cytology/isolation & purification/physiology
- topic2: Enzymology
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
4705 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12344) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12344 | |||
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 | |||
23372 | Christian Knoblauch, Kerstin Sahm, Bo B. Jorgensen | 10.1099/00207713-49-4-1631 | Psychrophilic sulfate-reducing bacteria isolated from permanently cold Arctic marine sediments: description of Desulfofrigus oceanense gen. nov., sp. nov., Desulfofrigus fragile sp. nov., Desulfofaba gelida gen. nov., sp. nov., Desulfotalea psychrophila gen. nov., sp. nov. and Desulfotalea arctica sp. nov. | IJSEM 49: 1631-1643 1999 | 10555345 | |
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 | |||
73490 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49274.1 | StrainInfo: A central database for resolving microbial strain identifiers |