Strain identifier

BacDive ID: 23199

Type strain: Yes

Species: Alloprevotella rava

Strain Designation: 81/4 12

Strain history: <- CCUG <- J Downes, Kings College, London, UK

NCBI tax ID(s): 671218 (species)

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General

@ref: 19290

BacDive-ID: 23199

DSM-Number: 22548

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, ovoid-shaped, human pathogen

description: Alloprevotella rava 81/4 12 is an anaerobe, mesophilic, Gram-negative human pathogen that was isolated from human periodontitis patient, oral cavity, subgingival plaque .

NCBI tax id

  • NCBI tax id: 671218
  • Matching level: species

strain history

@refhistory
19290<- J. Downes, King's College London, United Kingdom; 81/4 12 <- W. G. Wade
67771<- CCUG <- J Downes, Kings College, London, UK

doi: 10.13145/bacdive23199.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Prevotellaceae
  • genus: Alloprevotella
  • species: Alloprevotella rava
  • full scientific name: Alloprevotella rava Downes et al. 2013

@ref: 19290

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Prevotellaceae

genus: Alloprevotella

species: Alloprevotella rava

full scientific name: Alloprevotella rava Downes et al. 2013

strain designation: 81/4 12

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30660negative3 µm0.55 µmovoid-shapedno
67771no
67771negative
69480negative99.999

colony morphology

@refincubation period
192902-3 days
615912 days

pigmentation

  • @ref: 30660
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19290COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
19290FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203)yeshttps://mediadive.dsmz.de/medium/1203Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
19290positivegrowth37mesophilic
30660positivegrowth30-42
30660positiveoptimum35mesophilic
61591positivegrowth35mesophilic
67771positivegrowth37mesophilic

culture pH

@refabilitytypepH
30660positivegrowth06-07
30660positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
19290anaerobe
30660anaerobe
61591anaerobe
67771anaerobe
69480anaerobe99.556

spore formation

@refspore formationconfidence
69481no100
69480no99.999

observation

  • @ref: 30660
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3066028757fructose+carbon source
3066017234glucose+carbon source
3066017716lactose+carbon source
3066017306maltose+carbon source
3066037684mannose+carbon source
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
30660alkaline phosphatase+3.1.3.1
30660alpha-galactosidase+3.2.1.22
30660gelatinase+
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

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
19290---+-----+------+-------+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
19290human periodontitis patient, oral cavity, subgingival plaque (>8 mm periodontal pocket)CardiffUnited KingdomGBREurope
61591Human oral cavity,8mm periodental pocketCardiffUnited KingdomGBREurope1985-11-01
67771From human periodontitis patient, oral cavity, subgingival plaque(>8 mm periodontal pocket)United KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Host#Human
#Host Body-Site#Oral cavity and airways#Periodontal pocket
#Host Body-Site#Oral cavity and airways#Subgingival plaque

taxonmaps

  • @ref: 69479
  • File name: preview.99_6714.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_594;96_3176;97_3894;98_4949;99_6714&stattab=map
  • Last taxonomy: Alloprevotella rava subclade
  • 16S sequence: JQ039189
  • Sequence Identity:
  • Total samples: 10215
  • soil counts: 103
  • aquatic counts: 96
  • animal counts: 9985
  • plant counts: 31

Safety information

risk assessment

  • @ref: 19290
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 19290
  • description: Alloprevotella rava strain 81/4-12 16S ribosomal RNA gene, partial sequence
  • accession: JQ039189
  • length: 1455
  • database: ena
  • NCBI tax ID: 671218

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Alloprevotella rava DSM 22548GCA_014195585contigncbi671218
66792Alloprevotella rava strain DSM 22548671218.7wgspatric671218
66792Alloprevotella rava DSM 225482827976805draftimg671218

GC content

@refGC-contentmethod
1929047high performance liquid chromatography (HPLC)
3066047
6777147.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno97.62yes
anaerobicyes98.463yes
halophileno80.907no
spore-formingno96.037no
glucose-utilyes81.967no
thermophileno99.04yes
flagellatedno97.487no
motileno92.506yes
aerobicno98.806no
glucose-fermentyes57.387no

External links

@ref: 19290

culture collection no.: DSM 22548, CCUG 58091, KCTC 15416

straininfo link

  • @ref: 87428
  • straininfo: 400263

literature

  • topic: Phylogeny
  • Pubmed-ID: 22753527
  • title: Description of Alloprevotella rava gen. nov., sp. nov., isolated from the human oral cavity, and reclassification of Prevotella tannerae Moore et al. 1994 as Alloprevotella tannerae gen. nov., comb. nov.
  • authors: Downes J, Dewhirst FE, Tanner ACR, Wade WG
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.041376-0
  • year: 2012
  • mesh: Acetic Acid/metabolism, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Fermentation, Humans, Molecular Sequence Data, Mouth/*microbiology, *Phylogeny, Prevotella/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Succinic Acid/metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
19290Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22548)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22548
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
30660Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2699128776041
61591Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 58091)https://www.ccug.se/strain?id=58091
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68380Automatically annotated from API rID32A
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
87428Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID400263.1StrainInfo: A central database for resolving microbial strain identifiers