Name: Avibacterium avium DSM 18557
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 11695

Type strain:

Species: Avibacterium avium

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

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

NCBI tax ID(s): 751 (species)

SI-ID 39584

ATCC 29546, CCUG 12833, CIP 100919, CCM 3836, NCTC 11297, DSM 18557

Special Collections

Other strains from Avibacterium avium

Section

When using BacDive for research please cite our paper

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

Gram-negative
rod-shaped
animal pathogen
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pasteurellales*
	Family	*Pasteurellaceae*
	Genus	*Avibacterium*
	Species	**Avibacterium avium**
	Full Scientific Name (LPSN)	Avibacterium avium (Hinz and Kunjara 1977) Blackall et al. 2005

	Synonym	Pasteurella avium
	Synonym	Haemophilus avium

Information on morphological and physiological properties Morphology

[Ref.: #116666]	Gram stain	negative
[Ref.: #125438]	Gram stain	negative Confidence in %97.5

[Ref.: #116666]	Cell shape	rod-shaped

[Ref.: #116666]	Motility	no
[Ref.: #125438]	Motility	no Confidence in %94.409

[Ref.: #7589]	Type of hemolysis	gamma
[Ref.: #7589]	Incubation period	1-2 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7589]

Culture medium

HAEMOPHILUS MEDIUM (DSMZ Medium 804)

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Culture medium growth

[Ref.: #7589]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7589]

Culture medium composition

expand / minimize

[Ref.: #36476]

Culture medium

MEDIUM 6 - Columbia agar with 10 % horse blood

[Ref.: #36476]

Culture medium growth

[Ref.: #36476]

Culture medium composition

expand / minimize

[Ref.: #116666]

Culture medium

CIP Medium 463

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

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Culture medium

CIP Medium 6

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

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Culture medium

CIP Medium 118-b

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #7589]			growth	37 °C
[Ref.: #36476]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

obligate aerobe Confidence in %98.1

[Ref.: #125439]	Ability of spore formation	no Confidence in %98.9
[Ref.: #125438]	Ability of spore formation	no Confidence in %93.247

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #116666]	nitrate ChEBI	+	reduction
[Ref.: #116666]	nitrite ChEBI	-	reduction
[Ref.: #68377]	ornithine ChEBI	-	degradation	* from API NH
[Ref.: #68377]	tryptophan ChEBI	-	energy source	* from API NH
[Ref.: #68377]	urea ChEBI	-	hydrolysis	* from API NH

	Metabolite production	Metabolite	Production
[Ref.: #116666]		indole ChEBI	no
[Ref.: #68377]		indole ChEBI	no	* from API NH

	Physiological tests	Metabolite	Indole test
[Ref.: #68377]		indole ChEBI	-	* from API NH

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #116666]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym, API NH
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #7589]	catalase	+	1.11.1.6
[Ref.: #116666]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #7589]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #116666]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #116666]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68377]	ornithine decarboxylase	-	4.1.1.17	* from API NH
[Ref.: #116666]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68377]	tryptophan deaminase	-	4.1.99.1	* from API NH
[Ref.: #116666]	urease	-	3.5.1.5
[Ref.: #68377]	urease	-	3.5.1.5	* from API NH
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® NH:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Penicillinase productionPEN	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from maltoseMAL	Acid from sucroseSAC	Ornithine decarboxylaseODC	Urease/urea hydrolysisURE	LipaseLIP	Alkaline phosphatasePAL	beta-Galactosidasebeta GAL	Proline arylamidaseProA	gamma-Glutamyl transferaseGGT	Indole productionIND
[Ref.: #7589]	6771	+	+	-	+	-	-	-	+	-	-	+	-	-
[Ref.: #7589]	6770	+	+/-	-	+	-	-	-	+	-	-	+	-	-
[Ref.: #7589]	6416	-	+	+/-	-	+	-	-	-	+	-	-	+	-
[Ref.: #7589]	6415	-	+	+	-	+	-	-	-	+	-	-	+	-

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #116666]	6648	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	+	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #7589]	Sample type/isolated from	infraorbital sinus of chicken
[Ref.: #7589]	Country	USA
[Ref.: #7589]	Country ISO 3 Code	USA
[Ref.: #7589]	Continent	North America

[Ref.: #45835]	Sample type/isolated from	Chick,infraorbital sinus
[Ref.: #45835]	Country	USA
[Ref.: #45835]	Country ISO 3 Code	USA
[Ref.: #45835]	Continent	North America

[Ref.: #116666]	Sample type/isolated from	Animal, Chick, infraorbital sinus
[Ref.: #116666]	Country	United States of America
[Ref.: #116666]	Country ISO 3 Code	USA
[Ref.: #116666]	Continent	North America
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence M75058 (>99% sequence identity) for Avibacterium avium from Microbeatlas

Aquatic Samples
Soil Samples	4
Animal Samples	76
Plant Samples
Total Samples	80

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #7589]	Pathogenicity (animal)	yes
[Ref.: #7589]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #116666]	Biosafety level	2	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #7589]	Avibacterium avium strain NCTC 11297 16S ribosomal RNA gene, partial sequence	M75058	1478	GenBank ENA	751 tax ID
[Ref.: #20218]	Avibacterium avium strain CCUG 12833 16S ribosomal RNA gene, partial sequence	AY362916	1363	GenBank ENA	751 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Avibacterium avium NCTC 11297	GCA_900454535	contig	GenBank ENA	751 tax ID	*
[Ref.: #66792]	Avibacterium avium strain NCTC 11297 strain NCTC11297	751.5	wgs	PATRIC	751 tax ID	*
[Ref.: #66792]	Avibacterium avium NCTC 11297	2894400626	draft	JGI IMG/M	751 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Avibacterium avium strain NCTC 11297 strain NCTC11297 PATRIC: 751.5
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	97.5	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	93.735	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	84.075	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	93.247	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.5	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	94.409	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Avibacterium avium NCTC 11297 NCBI: GCA_900454535
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	98.9
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	73.7
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	80.4
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	98.1

Availability in culture collections External links

[Ref.: #7589]

Culture collection no.

DSM 18557, ATCC 29546, CCM 3836, CCUG 12833, CIP 100919, NCTC 11297

[Ref.: #80915]

SI-ID 39584

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	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.	Blackall PJ, Christensen H, Beckenham T, Blackall LL, Bisgaard M	Int J Syst Evol Microbiol	10.1099/ijs.0.63357-0	2005	*

References

#7589

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18557

#20215

Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#36476 ; Curators of the CIP;
#45835 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 12833

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#68377

Automatically annotated from API NH .

#68382

Automatically annotated from API zym .

#69479

João 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.: MicrobeAtlas 1.0 beta .

#80915

Reimer, 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 identifiers . ( DOI 10.60712/SI-ID39584.1 )

#116666 Collection of Institut Pasteur ; Curators of the CIP; CIP 100919

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Avibacterium avium strain NCTC 11297 strain NCTC11297

Avibacterium avium NCTC 11297

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