Strain identifier

BacDive ID: 4148

Type strain: Yes

Species: Fundidesulfovibrio putealis

Strain Designation: B7-43

Strain history: <- M. Magot, Université de Pau et des Pays de l'Adour, IBEAS, Pau, France; B7-43 <- M. Magot {1999}

NCBI tax ID(s): 1121462 (strain), 270496 (species)

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General

@ref: 6245

BacDive-ID: 4148

DSM-Number: 16056

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, vibrio-shaped

description: Fundidesulfovibrio putealis B7-43 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from water well.

NCBI tax id

NCBI tax idMatching level
1121462strain
270496species

strain history

  • @ref: 6245
  • history: <- M. Magot, Université de Pau et des Pays de l'Adour, IBEAS, Pau, France; B7-43 <- M. Magot {1999}

doi: 10.13145/bacdive4148.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Deltaproteobacteria
  • order: Desulfovibrionales
  • family: Desulfovibrionaceae
  • genus: Fundidesulfovibrio
  • species: Fundidesulfovibrio putealis
  • full scientific name: Fundidesulfovibrio putealis (Basso et al. 2005) Waite et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Desulfovibrio putealis

@ref: 6245

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfovibrionales

family: Desulfovibrionaceae

genus: Fundidesulfovibrio

species: Fundidesulfovibrio putealis

full scientific name: Fundidesulfovibrio putealis (Basso et al. 2005) Waite et al. 2020

strain designation: B7-43

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23211negative2.3-4.1 µm0.7 µmvibrio-shapedyespolar
69480yes95.238
69480negative99.993

Culture and growth conditions

culture medium

  • @ref: 6245
  • name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/641
  • composition: Name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641) Composition: Na-DL-lactate 2.49252 g/l Na2SO4 1.99402 g/l NH4Cl 0.997009 g/l Yeast extract 0.997009 g/l Na2CO3 0.997009 g/l MgSO4 x 7 H2O 0.997009 g/l Na2S2O3 x 5 H2O 0.997009 g/l KH2PO4 0.498504 g/l Na2S x 9 H2O 0.0997009 g/l CaCl2 x 2 H2O 0.0997009 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 Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 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

@refgrowthtypetemperaturerange
6245positivegrowth30mesophilic
23211positiveoptimum30mesophilic

culture pH

  • @ref: 23211
  • ability: positive
  • type: optimum
  • pH: 7.0

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
6245anaerobe
23211anaerobe
69480anaerobe99.998

spore formation

@refspore formationconfidence
69481no100
69480no99.977

halophily

@refsaltgrowthtested relationconcentration
23211NaClpositivegrowth0-6 g/L
23211NaClpositiveoptimum1 g/L

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2321130089acetate-carbon source
2321116449alanine-carbon source
2321135391aspartate-carbon source
2321116150benzoate-carbon source
2321117968butyrate-carbon source
2321116947citrate-carbon source
2321115740formate-carbon source
2321128757fructose-carbon source
2321117234glucose-carbon source
2321129987glutamate-carbon source
2321117790methanol-carbon source
2321128831propanol-carbon source
2321130031succinate-carbon source
2321117578toluene-carbon source
2321133403elemental sulfur-electron acceptor
2321117632nitrate-electron acceptor
2321130089acetate-electron donor
2321115356cysteine-electron donor
2321117754glycerol-electron donor
2321117272propionate-electron donor
2321124996lactate-fermentation
2321129806fumarate+electron acceptor
2321115138sulfide+electron acceptor
2321116094thiosulfate+electron acceptor
2321128885butanol+electron donor
2321116236ethanol+electron donor
2321129806fumarate+electron donor
2321115428glycine+electron donor
2321124996lactate+electron donor
2321125115malate+electron donor
2321115361pyruvate+electron donor
2321129806fumarate+fermentation
2321125115malate+fermentation
2321115361pyruvate+fermentation

Isolation, sampling and environmental information

isolation

  • @ref: 6245
  • sample type: water well
  • geographic location: Paris Basin
  • country: France
  • origin.country: FRA
  • continent: Europe

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_5939.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_548;96_2837;97_3489;98_4415;99_5939&stattab=map
  • Last taxonomy: Desulfovibrio putealis subclade
  • 16S sequence: AY574979
  • Sequence Identity:
  • Total samples: 10075
  • soil counts: 2088
  • aquatic counts: 6422
  • animal counts: 654
  • plant counts: 911

Safety information

risk assessment

  • @ref: 6245
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6245
  • description: Desulfovibrio putealis 16S ribosomal RNA gene, partial sequence
  • accession: AY574979
  • length: 1498
  • database: ena
  • NCBI tax ID: 270496

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Fundidesulfovibrio putealis DSM 16056GCA_000429325scaffoldncbi1121462
66792Desulfovibrio putealis DSM 160561121462.3wgspatric1121462
66792Desulfovibrio putealis DSM 160562523231030draftimg1121462

GC content

@refGC-contentmethod
624557.8
2321157.8high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.048yes
flagellatedno70.735no
gram-positiveno98.26yes
anaerobicyes97.487no
aerobicno96.871yes
halophileno94.02yes
spore-formingno92.152no
thermophileno93.461yes
glucose-utilno69.675yes
glucose-fermentno82.75no

External links

@ref: 6245

culture collection no.: DSM 16056, ATCC BAA 905

straininfo link

  • @ref: 73649
  • straininfo: 131096

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15653861Desulfovibrio putealis sp. nov., a novel sulfate-reducing bacterium isolated from a deep subsurface aquifer.Basso O, Caumette P, Magot MInt J Syst Evol Microbiol10.1099/ijs.0.63303-02005Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Desulfovibrio/*classification/genetics/*isolation & purification/physiology, France, Fresh Water/*microbiology, Genes, rRNA, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sulfates/*metabolism, Sulfur-Reducing Bacteria/classification/genetics/isolation & purification/metabolismEnzymology
Phylogeny33705469Isolation and cultivation of a novel sulfate-reducing magnetotactic bacterium belonging to the genus Desulfovibrio.Shimoshige H, Kobayashi H, Shimamura S, Mizuki T, Inoue A, Maekawa TPLoS One10.1371/journal.pone.02483132021*Desulfovibrio/classification/genetics/isolation & purification/metabolism, Ferrosoferric Oxide/metabolism, Magnetite Nanoparticles, RNA, Bacterial/genetics/metabolism, RNA, Ribosomal, 16S/genetics/metabolismMetabolism
Phylogeny36166368Fundidesulfovibrio magnetotacticus sp. nov., a sulphate-reducing magnetotactic bacterium, isolated from sediments and freshwater of a pond.Shimoshige H, Kobayashi H, Shimamura S, Miyazaki M, Maekawa TInt J Syst Evol Microbiol10.1099/ijsem.0.00551620221-Propanol, Bacterial Typing Techniques, Base Composition, Catalase/genetics, Cytochromes c/genetics, DNA, Bacterial/genetics, Ethanol, Fatty Acids/chemistry, Ferrosoferric Oxide, Formates, Fumarates, Hydrogensulfite Reductase/genetics, Iron, Lactates, Malates, Nucleotides, Peptones, Phylogeny, Ponds, Pyruvates, Quinic Acid, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride, Succinates, *Sulfates, *Tartrates, Thiosulfates, Vitamin K 2Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6245Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16056)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16056
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
23211Odile Basso, Pierre Caumette, Michel Magot10.1099/ijs.0.63303-0Desulfovibrio putealis sp. nov., a novel sulfate-reducing bacterium isolated from a deep subsurface aquiferIJSEM 55: 101-104 200515653861
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
73649Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID131096.1StrainInfo: A central database for resolving microbial strain identifiers