Strain identifier

BacDive ID: 4072

Type strain: Yes

Species: Solidesulfovibrio carbinolicus

Strain history: <- H.J. Nanninga, EDK 82

NCBI tax ID(s): 296842 (species)

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General

@ref: 1482

BacDive-ID: 4072

DSM-Number: 3852

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

description: Solidesulfovibrio carbinolicus DSM 3852 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from anaerobic waste water treatment plant, potato starch factory.

NCBI tax id

  • NCBI tax id: 296842
  • Matching level: species

strain history

  • @ref: 1482
  • history: <- H.J. Nanninga, EDK 82

doi: 10.13145/bacdive4072.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Deltaproteobacteria
  • order: Desulfovibrionales
  • family: Desulfovibrionaceae
  • genus: Solidesulfovibrio
  • species: Solidesulfovibrio carbinolicus
  • full scientific name: Solidesulfovibrio carbinolicus (Nanninga and Gottschal 1995) Waite et al. 2020
  • synonyms

    • @ref: 20215
    • synonym: Desulfovibrio carbinolicus

@ref: 1482

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfovibrionales

family: Desulfovibrionaceae

genus: Solidesulfovibrio

species: Solidesulfovibrio carbinolicus

full scientific name: Solidesulfovibrio carbinolicus (Nanninga and Gottschal 1995) Waite et al. 2020

type strain: yes

Morphology

cell morphology

@refgram stainconfidencemotility
69480negative99.909
6948096.909yes

Culture and growth conditions

culture medium

  • @ref: 1482
  • name: DESULFOBULBUS SP. MEDIUM (FRESHWATER) (DSMZ Medium 194)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/194
  • composition: Name: DESULFOBULBUS SP. MEDIUM (FRESHWATER) (DSMZ Medium 194; with strain-specific modifications) Composition: Na2SO4 2.99103 g/l Na2CO3 1.49551 g/l NaCl 0.997009 g/l Ethanol absolute 0.697906 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l MgCl2 x 6 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l Yeast extract 0.0997009 g/l Casamino acids 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 Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Thiamine HCl 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 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: 1482
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1482anaerobe
69480anaerobe99.546

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.11

compound production

@refcompound
14821,3 propanediol
14823-OH propionate

Isolation, sampling and environmental information

isolation

  • @ref: 1482
  • sample type: anaerobic waste water treatment plant, potato starch factory
  • geographic location: Dekrim
  • country: Netherlands
  • origin.country: NLD
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial
#Engineered#Waste#Water treatment plant
#Condition#Anoxic (anaerobic)

taxonmaps

  • @ref: 69479
  • File name: preview.99_546.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_120;96_346;97_386;98_443;99_546&stattab=map
  • Last taxonomy: Desulfovibrio
  • 16S sequence: DQ186201
  • Sequence Identity:
  • Total samples: 4211
  • soil counts: 453
  • aquatic counts: 2969
  • animal counts: 351
  • plant counts: 438

Safety information

risk assessment

  • @ref: 1482
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Desulfovibrio carbinolicus strain DSM 3852 16S ribosomal RNA gene, partial sequenceDQ1862011026ena296842
1482Desulfovibrio carbinolicus strain DSM 3852 16S ribosomal RNA gene, partial sequenceAY6260351510ena296842

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Solidesulfovibrio carbinolicus DSM 3852GCA_004135975completencbi296842
66792Desulfovibrio carbinolicus strain DSM 3852296842.5completepatric296842
66792Desulfovibrio carbinolicus DSM 38522841463281completeimg296842

GC content

  • @ref: 1482
  • GC-content: 65.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno86no
motileyes87.911no
flagellatedno75.797no
gram-positiveno98.675no
anaerobicyes97.177yes
aerobicno97.342no
halophileno83.104no
spore-formingno92.588no
glucose-utilno53.682no
thermophileno92.827yes
glucose-fermentno80.972no

External links

@ref: 1482

culture collection no.: DSM 3852, VKM B-1758

straininfo link

  • @ref: 73575
  • straininfo: 47768

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1482Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3852)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3852
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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)
73575Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID47768.1StrainInfo: A central database for resolving microbial strain identifiers