Name: Phocaeicola dorei Cla-CZ-110
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 160609

Type strain:

Species: Phocaeicola dorei

Strain Designation: Cla-CZ-110

Culture col. no.: DSM 108974

Strain history: <- T. Clavel, RWTH Aachen; Cla-CZ-110 <- C. Zenner, LMU, München;

NCBI tax ID(s): 357276 (species)

SI-ID 400978

DSM 108974

Special Collections

Other strains from Phocaeicola dorei

Section

Phocaeicola dorei Cla-CZ-110 is an anaerobe, Gram-negative bacterium that was isolated from chicken caecal content, 21days old.

Gram-negative
anaerobe
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	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Bacteroidaceae*
	Genus	*Phocaeicola*
	Species	**Phocaeicola dorei**
	Full Scientific Name (LPSN)	Phocaeicola dorei (Bakir et al. 2006) García-López et al. 2020

Synonym

Bacteroides dorei

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %94.174

[Ref.: #69480]	Motility	no Confidence in %90.095

Information on culture and growth conditions Culture and growth conditions

[Ref.: #67517]

Culture medium

FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)

[Ref.: #67517]

Culture medium growth

[Ref.: #67517]

Culture medium link

Medium recipe at MediaDive

[Ref.: #67517]

Culture medium composition

expand / minimize

[Ref.: #67517]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #67517]

Culture medium growth

[Ref.: #67517]

Culture medium link

Medium recipe at MediaDive

[Ref.: #67517]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #67517]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

anaerobe Confidence in %90.764

	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.: #68380]	L-glutamate ChEBI	+	degradation	* from API rID32A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	+	fermentation	* from API rID32A
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A

	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.: #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]	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]	L-arginine arylamidase	+		* from API rID32A
[Ref.: #68380]	leucine arylamidase	+	3.4.11.1	* 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.: #68380]	tryptophan deaminase	-	4.1.99.1	* 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.: #67517]	13263	-	-	+	+	+/-	+	+	+	+/-	+	+	+	+	+	-	-	+	+	-	+	+	+	-	+/-	+	+	+	+	+/-
[Ref.: #67517]	13399	-	-	+	+	-	+	+/-	+	-	+	+	+	+	+	-	-	+	+	-	+	+	+	+/-	+/-	+	+	+	+	+/-

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

[Ref.: #67517]	Sample type/isolated from	chicken caecal content, 21days old
[Ref.: #67517]	Geographic location (country and/or sea, region)	Munich
[Ref.: #67517]	Country	Germany
[Ref.: #67517]	Country ISO 3 Code	DEU
[Ref.: #67517]	Continent	Europe
* marker position based on {}

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

[Ref.: #67517]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #67517]	Phocaeicola dorei strain ClaCZ110 16S ribosomal RNA gene, partial sequence	MN055948.1	1478	GenBank ENA	357276 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Phocaeicola dorei strain DSM 108974	357276.1074	wgs	PATRIC	357276 tax ID	*
[Ref.: #66792]	Phocaeicola dorei DSM 108974	GCA_014982965	contig	GenBank ENA	357276 tax ID	*

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Phocaeicola dorei strain DSM 108974 PATRIC: 357276.1074
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	94.174	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	90.764	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.916	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	94.207	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.002	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	90.095	no

Availability in culture collections External links

[Ref.: #67517]

Culture collection no.

DSM 108974

[Ref.: #112847]

SI-ID 400978

References

#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 )

#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) .

#67517

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 108974

#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) .

#112847

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-ID400978.1 )

* These data were automatically processed and therefore are not curated

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Phocaeicola dorei strain DSM 108974

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