Strain identifier

BacDive ID: 143590

Type strain: Yes

Species: Bacteroides zoogleoformans

Strain history: CCUG 20495 <-- D. N. Love and J. Raus <-- ATCC 33285 <-- L. V. Holdeman VPI D28K-1.

NCBI tax ID(s): 28119 (species)

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General

@ref: 47140

BacDive-ID: 143590

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic

description: Bacteroides zoogleoformans CCUG 20495 is an anaerobe, mesophilic bacterium that was isolated from Human oral cavity.

NCBI tax id

  • NCBI tax id: 28119
  • Matching level: species

strain history

  • @ref: 67770
  • history: CCUG 20495 <-- D. N. Love and J. Raus <-- ATCC 33285 <-- L. V. Holdeman VPI D28K-1.

doi: 10.13145/bacdive143590.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Bacteroidaceae
  • genus: Bacteroides
  • species: Bacteroides zoogleoformans
  • full scientific name: Bacteroides zoogleoformans (Weinberg et al. 1937) Cato et al. 1982

  • synonyms

    @refsynonym
    20215Capsularis zoogleoformans
    20215Bacterium zoogleiformans
    20215Prevotella zoogleoformans
    20215Capsularis zoogleiformans

@ref: 47140

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Prevotellaceae

genus: Prevotella

species: Prevotella zoogleoformans

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.078
6948099.998negative

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
47140positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
47140anaerobe
69480anaerobe99.742

spore formation

@refspore formationconfidence
69481no100
69480no99.998

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate arylamidase+
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase+3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase+3.2.1.55
68380beta-glucosidase+3.2.1.21
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate+
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase+3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
47140-+--------++++---+-+

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
47140--++++++-+---+--+--+----+--+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
47140Human oral cavityVirginiaUSAUSANorth America
67770Gingival crevice

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways
#Host Body-Site#Oral cavity and airways#Mouth

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Bacteroides zoogleoformans gene for 16S ribosomal RNA, partial sequenceAB6266291489ena28119
67770Bacteroides zoogleoformans strain ATCC 33285 16S ribosomal RNA gene, partial sequenceL164881471ena28119

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacteroides zoogleoformans ATCC 33285GCA_002998435completencbi28119
66792Bacteroides zoogleoformans ATCC 33285GCA_007830715scaffoldncbi28119
66792Bacteroides zoogleoformans strain ATCC 3328528119.4completepatric28119
66792Bacteroides zoogleoformans strain ATCC 3328528119.6wgspatric28119
66792Bacteroides zoogleoformans ATCC 332852802429456completeimg28119
66792Bacteroides zoogleoformans ATCC 332852596583692draftimg28119

GC content

  • @ref: 67770
  • GC-content: 47
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno96.925no
gram-positiveno94.993no
anaerobicyes98.983yes
aerobicno98.279no
halophileno86.095no
spore-formingno90.78no
glucose-utilyes88.09no
thermophileno97.314no
motileno89.891no
glucose-fermentyes69.922no

External links

@ref: 47140

culture collection no.: CCUG 20495, CIP 104479, ATCC 33285, NCTC 13075, JCM 16136, JCM 12260, VPI D28K-1

straininfo link

  • @ref: 98935
  • straininfo: 40428

literature

  • topic: Phylogeny
  • Pubmed-ID: 35170999
  • title: Paraphocaeicola brunensis gen. nov., sp. nov., Carrying Two Variants of nimB Resistance Gene from Bacteroides fragilis, and Caecibacteroides pullorum gen. nov., sp. nov., Two Novel Genera Isolated from Chicken Caeca.
  • authors: Kralova S, Davidova-Gerzova L, Valcek A, Bezdicek M, Rychlik I, Rezacova V, Cizek A
  • journal: Microbiol Spectr
  • DOI: 10.1128/spectrum.01954-21
  • year: 2022
  • mesh: Animals, Anti-Bacterial Agents, Bacterial Proteins/*genetics, Bacterial Typing Techniques, Bacteroidaceae/classification/drug effects/*genetics/isolation & purification, Bacteroides fragilis/classification/drug effects/*genetics/isolation & purification, Cecum/microbiology, Chickens/*microbiology, Drug Resistance, Bacterial/*genetics, Drug Resistance, Microbial, *Phylogeny, RNA, Ribosomal, 16S
  • topic2: Enzymology

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
47140Curators of the CCUGhttps://www.ccug.se/strain?id=20495Culture Collection University of Gothenburg (CCUG) (CCUG 20495)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68380Automatically annotated from API rID32A
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
98935Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID40428.1