Strain identifier

BacDive ID: 17370

Type strain: Yes

Species: Victivallis vadensis

Strain Designation: Cello

Strain history: <- C. M. Plugge, Wageningen University, Laboratory of Microbiology, Netherlands; Cello <- C. M. Plugge {2001}

NCBI tax ID(s): 172901 (species)

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General

@ref: 5561

BacDive-ID: 17370

DSM-Number: 14823

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

description: Victivallis vadensis Cello is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from fecal sample of healthy Dutch man.

NCBI tax id

  • NCBI tax id: 172901
  • Matching level: species

strain history

  • @ref: 5561
  • history: <- C. M. Plugge, Wageningen University, Laboratory of Microbiology, Netherlands; Cello <- C. M. Plugge {2001}

doi: 10.13145/bacdive17370.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/lentisphaerota
  • domain: Bacteria
  • phylum: Lentisphaerota
  • class: Lentisphaeria
  • order: Victivallales
  • family: Victivallaceae
  • genus: Victivallis
  • species: Victivallis vadensis
  • full scientific name: Victivallis vadensis Zoetendal et al. 2003

@ref: 5561

domain: Bacteria

phylum: Lentisphaerae

class: Lentisphaeria

order: Victivallales

family: Victivallaceae

genus: Victivallis

species: Victivallis vadensis

full scientific name: Victivallis vadensis Zoetendal et al. 2003

strain designation: Cello

type strain: yes

Morphology

cell morphology

@refgram staincell widthcell shapemotilityconfidence
43386negative0.5-1.3 µmcoccus-shapedno
69480negative99.99

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5561SYNTROPHOBACTER (MPOB) MEDIUM (DSMZ Medium 684)yeshttps://mediadive.dsmz.de/medium/684Name: SYNTROPHOBACTER (MPOB) MEDIUM (DSMZ Medium 684; with strain-specific modifications) Composition: Glucose 4.98504 g/l Na2CO3 0.997009 g/l Na2HPO4 x 2 H2O 0.528415 g/l Na2S x 9 H2O 0.498504 g/l KH2PO4 0.408774 g/l NH4Cl 0.299103 g/l NaCl 0.299103 g/l Yeast extract 0.199402 g/l CaCl2 x 2 H2O 0.109671 g/l MgCl2 x 6 H2O 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l NaOH 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 p-Aminobenzoic 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 Thiamine HCl 4.98504e-05 g/l (DL)-alpha-Lipoic acid 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
43386Bicarbonate-buffered mineral salts medium with cellobioseyes

culture temp

@refgrowthtypetemperaturerange
5561positivegrowth37mesophilic
60267positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
5561anaerobe
60267obligate anaerobe
69480anaerobe100

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.987

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
43386356862-butanol-assimilation
4338616526carbon dioxide-growth
43386casamino acids-growth
43386casein-assimilation
4338617057cellobiose+growth
4338662968cellulose-growth
4338618276dihydrogen-growth
4338616236ethanol-assimilation
4338628757fructose+growth
4338633984fucose-growth
4338629806fumarate-growth
4338628260galactose+growth
433865291gelatin-growth
4338617234glucose+growth
4338617716lactose+growth
433866359lactulose+growth
4338617306maltose+growth
4338661993maltotriose+growth
4338629864mannitol+growth
4338628053melibiose+growth
4338617790methanol-assimilation
4338617268myo-inositol+growth
4338617632nitrate-electron acceptor
4338630823oleate-growth
4338617309pectin-growth
43386peptone-assimilation
4338628831propanol-assimilation
4338615361pyruvate-growth
4338616634raffinose-growth
4338626546rhamnose+growth
4338633942ribose+growth
4338628017starch-growth
4338617992sucrose+growth
4338616189sulfate-electron acceptor
43386tryptone-assimilation
4338618222xylose+growth
43386yeast extract-growth

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
5561fecal sample of healthy Dutch manNetherlandsNLDEurope
60267Human feces,25-yr-old healthy Dutch manNetherlandsNLDEurope

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host Body Product#Gastrointestinal tract#Feces (Stool)
#Host#Human#Male

Safety information

risk assessment

  • @ref: 5561
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Victivallis vadensis ATCC BAA-548 strain Cello 16S ribosomal RNA gene, partial sequenceJQ3467291360ena340101
5561Victivallis vadensis 16S ribosomal RNA gene, complete sequenceAY0497131456ena340101

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Victivallis vadensis DSM 14823GCA_003096415scaffoldncbi172901
66792Victivallis vadensis strain DSM 14823172901.3wgspatric172901
66792Victivallis vadensis DSM 148232756170241draftimg172901

GC content

  • @ref: 5561
  • GC-content: 59.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno79no
flagellatedno97.251yes
gram-positiveno96.532yes
anaerobicyes98.365yes
halophileno88.395no
spore-formingno94.883no
glucose-utilyes82.153no
aerobicno95.636no
thermophileno98.254no
motileno89.734yes
glucose-fermentno53.807no

External links

@ref: 5561

culture collection no.: DSM 14823, ATCC BAA 548, CCUG 54625

straininfo link

  • @ref: 86369
  • straininfo: 101057

literature

  • topic: Phylogeny
  • Pubmed-ID: 12656175
  • title: Victivallis vadensis gen. nov., sp. nov., a sugar-fermenting anaerobe from human faeces.
  • authors: Zoetendal EG, Plugge CM, Akkermans ADL, de Vos WM
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02362-0
  • year: 2003
  • mesh: Base Composition, Carbohydrate Metabolism, Cellobiose/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Feces/microbiology, Fermentation, Gram-Negative Anaerobic Cocci/*classification/genetics/isolation & purification/*metabolism, Humans, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5561Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14823)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14823
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
43386Erwin G. Zoetendal, Caroline M. Plugge, Antoon D. L. Akkermans, Willem M. de Vos10.1099/ijs.0.02362-0Victivallis vadensis gen. nov., sp. nov., a sugar-fermenting anaerobe from human faecesIJSEM 53: 211-215 200312656175
60267Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54625)https://www.ccug.se/strain?id=54625
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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)
86369Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID101057.1StrainInfo: A central database for resolving microbial strain identifiers