Name: Arcanobacterium phocisimile 2698
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 22902

Type strain:

Species: Arcanobacterium phocisimile

Strain Designation: 2698

Culture col. no.: DSM 26142, CCM 8430, LMG 27073, CIP 110543

Strain history: CIP <- 2012, P. Kämpfer, Giessen Univ., Giessen, Germany: strain 2698

NCBI tax ID(s): 1302235 (species)

SI-ID 380918

LMG 27073, CCM 8430, CIP 110543, DSM 26142

Other strains from Arcanobacterium phocisimile

A. phocisimile 4112, CIP 110544

Section

Arcanobacterium phocisimile 2698 is an anaerobe, mesophilic, Gram-positive animal pathogen that was isolated from vaginal swab of a harbour seal.

Gram-positive
rod-shaped
anaerobe
animal pathogen
mesophilic
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Actinomycetales*
	Family	*Actinomycetaceae*
	Genus	*Arcanobacterium*
	Species	**Arcanobacterium phocisimile**
	Full Scientific Name (LPSN)	Arcanobacterium phocisimile Hijazin et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30836]	Gram stain	positive
[Ref.: #121804]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30836]	Cell length	1.5 µm

[Ref.: #30836]	Cell width	0.5 µm

[Ref.: #30836]	Cell shape	rod-shaped
[Ref.: #121804]	Cell shape	rod-shaped

[Ref.: #30836]	Motility	no
[Ref.: #121804]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %92.071

Information on culture and growth conditions Culture and growth conditions

[Ref.: #37605]

Culture medium

MEDIUM 45 - for Columbia agar with sheep blood

[Ref.: #37605]

Culture medium growth

[Ref.: #37605]

Culture medium composition

expand / minimize

[Ref.: #19334]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #19334]

Culture medium growth

[Ref.: #19334]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19334]

Culture medium composition

expand / minimize

[Ref.: #19334]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #19334]

Culture medium growth

[Ref.: #19334]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19334]

Culture medium composition

expand / minimize

[Ref.: #121804]

Culture medium

CIP Medium 45

[Ref.: #121804]

Culture medium growth

[Ref.: #121804]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #19334]			growth	37 °C
[Ref.: #37605]			growth	30 °C

[Ref.: #19334]	Temperature range	mesophilic
[Ref.: #37605]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #19334]	Oxygen tolerance	anaerobe
[Ref.: #19334]	Oxygen tolerance	microaerophile
[Ref.: #30836]	Oxygen tolerance	microaerophile
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %98.601

[Ref.: #30836]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.998

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68380]	D-mannose ChEBI	+	fermentation	* from API rID32A
[Ref.: #30836]	glycogen ChEBI	+	carbon source
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #30836]	lactose ChEBI	+	carbon source
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	+	fermentation	* from API rID32A
[Ref.: #30836]	ribose ChEBI	+	carbon source
[Ref.: #30836]	sucrose ChEBI	+	carbon source
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68380]		indole ChEBI	no	* from API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	-	* from API rID32A

	Enzyme	Enzyme activity	EC number
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #30836]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A
[Ref.: #68380]	alpha-glucosidase	+	3.2.1.20	* from API rID32A
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #68380]	beta-galactosidase	+	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #30836]	catalase	+	1.11.1.6
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #68380]	glycin arylamidase	-		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	+	3.4.11.5	* from API rID32A
[Ref.: #30836]	pyrazinamidase	+	3.5.1.B15
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

API® rID32A:

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

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #19334]	12806	-	-	-	+	-	+	-	-	-	-	+	+	-	-	-	-	-	+/-	+	-	-	+/-	-	-	-	-	-	-	-

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

[Ref.: #19334]	Sample type/isolated from	vaginal swab of a harbour seal
[Ref.: #19334]	Geographic location (country and/or sea, region)	North Sea
[Ref.: #19334]	Country	Germany
[Ref.: #19334]	Country ISO 3 Code	DEU
[Ref.: #19334]	Continent	Europe

[Ref.: #121804]	Sample type/isolated from	Harbour seals
[Ref.: #121804]	Geographic location (country and/or sea, region)	North Sea
[Ref.: #121804]	Country	Germany
[Ref.: #121804]	Country ISO 3 Code	DEU
[Ref.: #121804]	Continent	Europe
[Ref.: #121804]	Isolation date	2004
* marker position based on {}

Isolation sources categories

#Infection	#Patient	#Swab
#Host	#Mammals	-
#Host Body-Site	#Urogenital tract	#Vagina

What are isolation sources categories?

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

[Ref.: #19334]	Pathogenicity (animal)	yes, in single cases
[Ref.: #19334]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #121804]	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.: #19334]	Arcanobacterium phocisimile partial 16S rRNA gene, type strain 2698T	FN562996	1337	ENA	1302235 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Arcanobacterium phocisimile DSM 26142	GCA_016904675	complete	GenBank	1302235 tax ID	*
[Ref.: #66792]	Arcanobacterium phocisimile strain DSM 26142	1302235.3	complete	PATRIC	1302235 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Arcanobacterium phocisimile DSM 26142 NCBI: GCA_016904675.1
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Arcanobacterium phocisimile DSM 26142 NCBI: GCA_016904675.1
[Ref.: #69480]	flagellated	no	97.115	no
[Ref.: #69480]	gram-positive	yes	94.589	yes
[Ref.: #69480]	anaerobic	no	87.775	no
[Ref.: #69480]	aerobic	no	94.757	yes
[Ref.: #69480]	halophile	no	84.915	no
[Ref.: #69480]	spore-forming	no	95.941	yes
[Ref.: #69480]	thermophile	no	95.936	yes
[Ref.: #69480]	glucose-util	yes	86.42	no
[Ref.: #69480]	motile	no	92.417	yes
[Ref.: #69480]	glucose-ferment	yes	80.31	no

Availability in culture collections External links

[Ref.: #19334]

Culture collection no.

DSM 26142, CCM 8430, LMG 27073, CIP 110543

[Ref.: #87150]

SI-ID 380918

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Arcanobacterium pinnipediorum sp. nov., isolated from a harbour seal.	Sammra O, Balbutskaya A, Ulbegi-Mohyla H, Nagib S, Lammler C, Kampfer P, Glaeser SP, Golke J, Busse HJ, Prenger-Berninghoff E, Siebert U, Abdulmawjood A, Klein G	Int J Syst Evol Microbiol	10.1099/ijsem.0.000609	2015	*
Phylogeny	Arcanobacterium phocisimile sp. nov., isolated from harbour seals.	Hijazin M, Sammra O, Ulbegi-Mohyla H, Nagib S, Alber J, Lammler C, Kampfer P, Glaeser SP, Busse HJ, Kassmannhuber J, Prenger-Berninghoff E, Weiss R, Siebert U, Hassan AA, Abdulmawjood A, Zschock M	Int J Syst Evol Microbiol	10.1099/ijs.0.045591-0	2012	*
Genetics	Complete Genome Sequence of Arcanobacterium phocisimile Strain DSM 26142, Isolated from a Harbor Seal.	Borowiak M, Alssahen M, Malorny B, Lammler C, Siebert U, Plotz M, Abdulmawjood A	Microbiol Resour Announc	10.1128/MRA.00215-21	2021	*

References

#19334

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26142

#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 )

#30836

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 #27166 (see below)

#37605 ; Curators of the CIP;

#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) .

#68380

Automatically annotated from API rID32A .

#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 )

#87150

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-ID380918.1 )

#121804 Collection of Institut Pasteur ; Curators of the CIP; CIP 110543

#27166

IJSEM 2019 2013 ( DOI 10.1099/ijs.0.045591-0 , PubMed 23041640 )

* These data were automatically processed and therefore are not curated

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Arcanobacterium phocisimile DSM 26142

Arcanobacterium phocisimile DSM 26142

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