Strain identifier

BacDive ID: 3984

Type strain: Yes

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)

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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

@refgrowthtypetemperaturerange
4705positivegrowth5psychrophilic
23372positivegrowth-1.8-10psychrophilic
23372positiveoptimum7psychrophilic

culture pH

  • @ref: 23372
  • ability: positive
  • type: optimum
  • pH: 7.1-7.6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
4705anaerobe
23372obligate anaerobe

halophily

@refsaltgrowthtested relationconcentration
23372NaClpositiveoptimum1.4-2.5 %
23372MgCl2positivegrowth0.015-2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2337233403elemental sulfur-electron acceptor
2337230089acetate-electron donor
2337227689decanoate-electron donor
233727896hexadecanoate-electron donor
2337217822serine-electron donor
2337231011valerate-electron donor
2337224996lactate-fermentation
2337225115malate-fermentation
2337233403elemental sulfur-reduction
2337217632nitrate-reduction
2337216301nitrite-reduction
2337216449alanine+carbon source
2337228885butanol+carbon source
2337217968butyrate+carbon source
2337216236ethanol+carbon source
2337215740formate+carbon source
2337229806fumarate+carbon source
2337217754glycerol+carbon source
2337224996lactate+carbon source
2337225115malate+carbon source
2337228831propanol+carbon source
2337217272propionate+carbon source
2337215361pyruvate+carbon source
2337230031succinate+carbon source
2337216189sulfate+electron acceptor
2337217359sulfite+electron acceptor
2337216094thiosulfate+electron acceptor
2337216449alanine+electron donor
2337228885butanol+electron donor
2337217968butyrate+electron donor
2337216236ethanol+electron donor
2337215740formate+electron donor
2337229806fumarate+electron donor
2337224996lactate+electron donor
2337225115malate+electron donor
2337228831propanol+electron donor
2337217272propionate+electron donor
2337215361pyruvate+electron donor
2337230031succinate+electron donor
2337229806fumarate+fermentation
2337215361pyruvate+fermentation
2337217754glycerol+/-electron donor
2337215428glycine+/-electron donor

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
4705marine mudSpitsbergen, HornsundNorwayNOREurope
23372permanently cold marine sediments

isolation source categories

Cat1Cat2Cat3
#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

@refGC-contentmethod
470552.8high performance liquid chromatography (HPLC)
2337252.5high 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

@idauthorscataloguedoi/urltitlejournalpubmed
4705Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12344)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12344
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23372Christian Knoblauch, Kerstin Sahm, Bo B. Jorgensen10.1099/00207713-49-4-1631Psychrophilic 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 199910555345
69479João 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
73490Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49274.1StrainInfo: A central database for resolving microbial strain identifiers