Strain identifier

BacDive ID: 11696

Type strain: Yes

Species: Avibacterium volantium

Strain Designation: 6

Strain history: CIP <- 1986, NCTC, Haemophilus gallinarum <- 1931, R. Lovell: strain 6 <- C. McGaughey

NCBI tax ID(s): 762 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 16421

BacDive-ID: 11696

DSM-Number: 22841

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative, animal pathogen

description: Avibacterium volantium 6 is a microaerophile, mesophilic, Gram-negative animal pathogen that was isolated from fowls, respiratory passages.

NCBI tax id

  • NCBI tax id: 762
  • Matching level: species

strain history

@refhistory
16421<- CCUG; CCUG 3713 <- NCTC <- R. Lovell
123882CIP <- 1986, NCTC, Haemophilus gallinarum <- 1931, R. Lovell: strain 6 <- C. McGaughey

doi: 10.13145/bacdive11696.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pasteurellales
  • family: Pasteurellaceae
  • genus: Avibacterium
  • species: Avibacterium volantium
  • full scientific name: Avibacterium volantium (Mutters et al. 1985) Blackall et al. 2005

  • synonyms

    • @ref: 20215
    • synonym: Pasteurella volantium

@ref: 16421

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pasteurellales

family: Pasteurellaceae

genus: Avibacterium

species: Avibacterium volantium

full scientific name: Avibacterium volantium (Mutters et al. 1985) Blackall et al. 2005

strain designation: 6

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.955
123882negativerod-shapedno

colony morphology

  • @ref: 16421
  • type of hemolysis: gamma

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16421CHOCOLATE AGAR (DSMZ Medium 429b)yeshttps://mediadive.dsmz.de/medium/429bName: CHOCOLATE AGAR (DSMZ Medium 429b) Composition: Horse blood 100.0 g/l Sheep blood 100.0 g/l Columbia agar base
40445MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
123882CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6
123882CIP Medium 118-byeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=118-b

culture temp

@refgrowthtypetemperaturerange
16421positivegrowth37mesophilic
40445positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 16421
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
69481no100
69480no99.998

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837717634D-glucose+builds acid from
6837715824D-fructose+builds acid from
6837717306maltose+builds acid from
6837718257ornithine-degradation
6837716199urea-hydrolysis
6838129016arginine-hydrolysis
6838116988D-ribose-builds acid from
6838116899D-mannitol-builds acid from
6838130911sorbitol-builds acid from
6838117716lactose-builds acid from
6838127082trehalose-builds acid from
6838116634raffinose-builds acid from
6838117992sucrose-builds acid from
6838130849L-arabinose-builds acid from
6838118333D-arabitol-builds acid from
6838140585alpha-cyclodextrin-builds acid from
68381606565hippurate-hydrolysis
6838128087glycogen-builds acid from
6838127941pullulan-builds acid from
6838117306maltose-builds acid from
6838128053melibiose-builds acid from
683816731melezitose-builds acid from
68381320055methyl beta-D-glucopyranoside-builds acid from
6838116443D-tagatose-builds acid from
6838116199urea-hydrolysis

metabolite production

  • @ref: 68381
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: no

metabolite tests

  • @ref: 68381
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
16421catalase+1.11.1.6
16421cytochrome-c oxidase+1.9.3.1
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase-
68381alkaline phosphatase+3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase-3.5.3.6
68377gamma-glutamyltransferase-2.3.2.2
68377proline-arylamidase-3.4.11.5
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
68377beta-lactamase+3.5.2.6

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
16421++++---++/----+
16421+++++---++/----

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
16421--+/---+--------------------------

Isolation, sampling and environmental information

isolation

@refsample typesampling datecountryorigin.countrycontinent
16421fowls, respiratory passages
44683Fowls,respiratory passages1931United KingdomGBREurope
123882Animal, Fowl, respiratory tractUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Host#Birds
#Host Body-Site#Oral cavity and airways#Airways

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
16421yes, in single cases1Risk group (German classification)
1238822Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pasteurella volantium strain CCUG 3713 16S ribosomal RNA gene, partial sequenceAY3629281363ena762
16421Avibacterium volantium strain NCTC 3438 16S ribosomal RNA gene, partial sequenceM750701481ena762

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Avibacterium volantium NCTC3438GCA_900635775completencbi762
66792Avibacterium volantium strain NCTC3438762.5completepatric762

GC content

  • @ref: 16421
  • GC-content: 43.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno96.978no
gram-positiveno98.485no
anaerobicno97.629yes
aerobicno93.878no
halophileno50.916no
spore-formingno98.9no
thermophileno98.261yes
glucose-utilno52.551no
motileno91.576no
glucose-fermentyes52.568no

External links

@ref: 16421

culture collection no.: DSM 22841, ATCC 14385, CCUG 3713, CIP 102677, NCTC 3438, Lovell 6, CCM 3838

straininfo link

  • @ref: 80916
  • straininfo: 70581

literature

  • topic: Phylogeny
  • Pubmed-ID: 15653900
  • title: Reclassification of Pasteurella gallinarum, [Haemophilus] paragallinarum, Pasteurella avium and Pasteurella volantium as Avibacterium gallinarum gen. nov., comb. nov., Avibacterium paragallinarum comb. nov., Avibacterium avium comb. nov. and Avibacterium volantium comb. nov.
  • authors: Blackall PJ, Christensen H, Beckenham T, Blackall LL, Bisgaard M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63357-0
  • year: 2005
  • mesh: Animals, Bacterial Typing Techniques, Bird Diseases/microbiology, Chickens/microbiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, Haemophilus Infections/microbiology/veterinary, Haemophilus paragallinarum/*classification/genetics, Molecular Sequence Data, Pasteurella/*classification/genetics, Pasteurellaceae/*classification/genetics, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16421Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22841)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22841
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
40445Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14390
44683Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 3713)https://www.ccug.se/strain?id=3713
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)
68377Automatically annotated from API NH
68381Automatically annotated from API rID32STR
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
80916Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID70581.1StrainInfo: A central database for resolving microbial strain identifiers
123882Curators of the CIPCollection of Institut Pasteur (CIP 102677)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102677