Name: Avibacterium endocarditidis 20186H4H1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 11693

Type strain:

Species: Avibacterium endocarditidis

Strain Designation: 20186H4H1

Culture col. no.: CIP 109717, DSM 18224, CCUG 52860

Strain history: CIP <- 2007, CCUG <- 2006, H. Crhistensen, Copenhagen Univ., Frederiksberg, Denmark: strain 20186H4H1

NCBI tax ID(s): 380674 (species)

SI-ID 309431

CCUG 52860, DSM 18224, CIP 109717

Special Collections

Section

Avibacterium endocarditidis 20186H4H1 is an aerobe, Gram-negative, rod-shaped animal pathogen that was isolated from chicken, valvular endocarditis.

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

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pasteurellales*
	Family	*Pasteurellaceae*
	Genus	*Avibacterium*
	Species	**Avibacterium endocarditidis**
	Full Scientific Name (LPSN)	Avibacterium endocarditidis Bisgaard et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32050]	Gram stain	negative
[Ref.: #119025]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %98.5

[Ref.: #32050]	Cell shape	rod-shaped
[Ref.: #119025]	Cell shape	rod-shaped

[Ref.: #32050]	Motility	no
[Ref.: #119025]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %92.376

[Ref.: #59690]

Incubation period

1 day

[Ref.: #32050]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7440]

Culture medium

COLUMBIA BLOOD AGAR (DSMZ Medium 429)

[Ref.: #7440]

Culture medium growth

[Ref.: #7440]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7440]

Culture medium composition

expand / minimize

[Ref.: #37433]

Culture medium

MEDIUM 6 - Columbia agar with 10 % horse blood

[Ref.: #37433]

Culture medium growth

[Ref.: #37433]

Culture medium composition

expand / minimize

[Ref.: #119025]

Culture medium

CIP Medium 72

[Ref.: #119025]

Culture medium growth

[Ref.: #119025]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119025]

Culture medium

CIP Medium 6

[Ref.: #119025]

Culture medium growth

[Ref.: #119025]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7440]	growth	37 °C
[Ref.: #32050]	optimum	37 °C
[Ref.: #37433]	growth	37 °C
[Ref.: #59690]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32050]	Oxygen tolerance	aerobe
[Ref.: #59690]	Oxygen tolerance	aerobe
[Ref.: #119025]	Oxygen tolerance	facultative anaerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %93.547
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68377]	D-fructose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	D-glucose ChEBI	+	builds acid from	* from API NH
[Ref.: #32050]	dextrin ChEBI	+	carbon source
[Ref.: #32050]	fructose ChEBI	+	carbon source
[Ref.: #32050]	galactose ChEBI	+	carbon source
[Ref.: #32050]	gluconate ChEBI	+	carbon source
[Ref.: #32050]	glucose ChEBI	+	carbon source
[Ref.: #32050]	glycerol ChEBI	+	carbon source
[Ref.: #32050]	malate ChEBI	+	carbon source
[Ref.: #32050]	maltose ChEBI	+	carbon source
[Ref.: #68377]	maltose ChEBI	+	builds acid from	* from API NH
[Ref.: #32050]	mannitol ChEBI	+	carbon source
[Ref.: #32050]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32050]	nitrate ChEBI	+	reduction
[Ref.: #119025]	nitrate ChEBI	+	reduction
[Ref.: #119025]	nitrite ChEBI	+	reduction
[Ref.: #68377]	ornithine ChEBI	-	degradation	* from API NH
[Ref.: #32050]	raffinose ChEBI	+	carbon source
[Ref.: #32050]	ribose ChEBI	+	carbon source
[Ref.: #32050]	sorbitol ChEBI	+	carbon source
[Ref.: #32050]	sucrose ChEBI	+	carbon source
[Ref.: #32050]	trehalose ChEBI	+	carbon source
[Ref.: #68377]	tryptophan ChEBI	-	energy source	* from API NH
[Ref.: #68377]	urea ChEBI	-	hydrolysis	* from API NH
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #119025]		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.: #32050]	acid phosphatase	+	3.1.3.2
[Ref.: #32050]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68377]	alkaline phosphatase	+	3.1.3.1	* from API NH
[Ref.: #32050]	alpha-galactosidase	+	3.2.1.22
[Ref.: #32050]	catalase	+	1.11.1.6
[Ref.: #119025]	catalase	+	1.11.1.6
[Ref.: #32050]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68377]	ornithine decarboxylase	-	4.1.1.17	* from API NH
[Ref.: #119025]	oxidase	+
[Ref.: #68377]	tryptophan deaminase	-	4.1.99.1	* from API NH
[Ref.: #32050]	urease	+	3.5.1.5
[Ref.: #119025]	urease	-	3.5.1.5
[Ref.: #68377]	urease	-	3.5.1.5	* from API NH
	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.: #7440]	6110	+	+	+	+	-	-	-	+	+	-	+	-	-
[Ref.: #7440]	5763	-	+	+	+	+	-	-	-	+	+	-	+	-

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

[Ref.: #7440]	Sample type/isolated from	chicken, valvular endocarditis
[Ref.: #7440]	Country	Denmark
[Ref.: #7440]	Country ISO 3 Code	DNK
[Ref.: #7440]	Continent	Europe

[Ref.: #59690]	Sample type/isolated from	Adult broiler parent hen,valvular endocarditis
[Ref.: #59690]	Sampling date	2004
[Ref.: #59690]	Geographic location (country and/or sea, region)	Copenhagen,RVAU
[Ref.: #59690]	Country	Denmark
[Ref.: #59690]	Country ISO 3 Code	DNK
[Ref.: #59690]	Continent	Europe

[Ref.: #119025]	Sample type/isolated from	Valvular endocarditis, adult broiler parent
[Ref.: #119025]	Geographic location (country and/or sea, region)	Copenhagen
[Ref.: #119025]	Country	Denmark
[Ref.: #119025]	Country ISO 3 Code	DNK
[Ref.: #119025]	Continent	Europe
[Ref.: #119025]	Isolation date	2004
* marker position based on {}

Isolation sources categories

#Infection	#Inflammation	-
#Host	#Birds	#Chicken

What are isolation sources categories?

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

[Ref.: #7440]	Pathogenicity (animal)	yes
[Ref.: #7440]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #119025]	Biosafety level	1	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.: #7440]	Avibacterium endocarditidis strain 20186H4H1 16S ribosomal RNA gene, partial sequence	DQ465412	1218	GenBank ENA	380674 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Avibacterium endocarditidis 20186H4H1	GCA_002921145	scaffold	GenBank ENA	380674 tax ID	*
[Ref.: #66792]	Avibacterium endocarditidis 20186H4H1	2842990487	draft	JGI IMG/M	380674 tax ID	*

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Avibacterium endocarditidis 20186H4H1 NCBI: GCA_002921145.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Avibacterium endocarditidis 20186H4H1 NCBI: GCA_002921145.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98.5	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.448	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	84.528	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	93.547	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	92.376	no

Availability in culture collections External links

[Ref.: #7440]

Culture collection no.

CIP 109717, DSM 18224, CCUG 52860

[Ref.: #80913]

SI-ID 309431

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Avibacterium endocarditidis sp. nov., isolated from valvular endocarditis in chickens.	Bisgaard M, Christensen JP, Bojesen AM, Christensen H	Int J Syst Evol Microbiol	10.1099/ijs.0.64879-0	2007	*

References

#7440

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18224

#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 )

#32050

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28300 (see below)

#37433 ; Curators of the CIP;
#59690 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 52860

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#80913

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-ID309431.1 )

#119025 Collection of Institut Pasteur ; Curators of the CIP; CIP 109717

#28300

IJSEM 1729 2007 ( DOI 10.1099/ijs.0.64879-0 , PubMed 17684246 )

* These data were automatically processed and therefore are not curated

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