Strain identifier

BacDive ID: 11695

Type strain: Yes

Species: Avibacterium avium

Strain history: CIP <- 1984, ATCC <- K.H. Hinz, Inst. Poultry Dis., Hannover, Germany: strain 2654, Haemophilus avium

NCBI tax ID(s): 751 (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: 7589

BacDive-ID: 11695

DSM-Number: 18557

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

description: Avibacterium avium DSM 18557 is a mesophilic, Gram-negative animal pathogen that was isolated from infraorbital sinus of chicken.

NCBI tax id

  • NCBI tax id: 751
  • Matching level: species

strain history

@refhistory
7589<- CIP <- ATCC <- K. H. Hinz
116666CIP <- 1984, ATCC <- K.H. Hinz, Inst. Poultry Dis., Hannover, Germany: strain 2654, Haemophilus avium

doi: 10.13145/bacdive11695.20230509.8.1

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 avium
  • full scientific name: Avibacterium avium (Hinz and Kunjara 1977) Blackall et al. 2005

  • synonyms

    @refsynonym
    20215Haemophilus avium
    20215Pasteurella avium

@ref: 7589

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pasteurellales

family: Pasteurellaceae

genus: Avibacterium

species: Avibacterium avium

full scientific name: Avibacterium avium (Hinz and Kunjara 1977) Blackall et al. 2005

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.93
116666negativerod-shapedno

colony morphology

  • @ref: 7589
  • type of hemolysis: gamma
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7589HAEMOPHILUS MEDIUM (DSMZ Medium 804)yeshttps://mediadive.dsmz.de/medium/804Name: HAEMOPHILUS MEDIUM (DSMZ Medium 804) Composition: Mueller-Hinton broth 21.0 g/l Yeast extract 5.0 g/l Distilled water
36476MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
116666CIP Medium 463yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=463
116666CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6
116666CIP Medium 118-byeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=118-b

culture temp

@refgrowthtypetemperaturerange
7589positivegrowth37mesophilic
36476positivegrowth37mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.992

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11666617632nitrate+reduction
11666616301nitrite-reduction
6837718257ornithine-degradation
6837716199urea-hydrolysis
6837727897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
6837735581indoleno
11666635581indoleno

metabolite tests

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
7589catalase+1.11.1.6
7589cytochrome-c oxidase+1.9.3.1
68377tryptophan deaminase-4.1.99.1
68377beta-galactosidase-3.2.1.23
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
116666oxidase-
116666alcohol dehydrogenase-1.1.1.1
116666catalase+1.11.1.6
116666lysine decarboxylase-4.1.1.18
116666ornithine decarboxylase-4.1.1.17
116666urease-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
116666-+++-+----++---+----

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
7589++-+---+--+--
7589++/--+---+--+--
7589-++/--+---+--+-
7589-++-+---+--+-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
7589infraorbital sinus of chickenUSAUSANorth America
45835Chick,infraorbital sinusUSAUSANorth America
116666Animal, Chick, infraorbital sinusUnited States of AmericaUSANorth America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_128651.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18;96_2031;97_2447;98_3028;99_128651&stattab=map
  • Last taxonomy: Avibacterium avium
  • 16S sequence: M75058
  • Sequence Identity:
  • Total samples: 80
  • soil counts: 4
  • animal counts: 76

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
7589yes2Risk group (German classification)
1166662Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pasteurella avium strain CCUG 12833 16S ribosomal RNA gene, partial sequenceAY3629161363ena751
7589Avibacterium avium strain NCTC 11297 16S ribosomal RNA gene, partial sequenceM750581478ena751

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Avibacterium avium NCTC 11297GCA_900454535contigncbi751
66792Avibacterium avium strain NCTC 11297 strain NCTC11297751.5wgspatric751
66792Avibacterium avium NCTC 112972894400626draftimg751

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno88.774no
flagellatedno95.693no
gram-positiveno98.397no
anaerobicno97.557no
aerobicno94.171no
halophileyes58.527no
spore-formingno98.672no
thermophileno98.803yes
glucose-utilno52.492no
glucose-fermentyes57.306no

External links

@ref: 7589

culture collection no.: DSM 18557, ATCC 29546, CCM 3836, CCUG 12833, CIP 100919, NCTC 11297

straininfo link

  • @ref: 80915
  • straininfo: 39584

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
7589Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18557)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18557
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
36476Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/12437
45835Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 12833)https://www.ccug.se/strain?id=12833
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
68382Automatically annotated from API zym
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
80915Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID39584.1StrainInfo: A central database for resolving microbial strain identifiers
116666Curators of the CIPCollection of Institut Pasteur (CIP 100919)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20100919