Name: Anaerococcus degeneri UMCG-104
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132505

Type strain:

Species: Anaerococcus degeneri

Strain Designation: UMCG-104, gpac104, UMCG-gpac104

Culture col. no.: DSM 29674, CCUG 69679

Strain history: <- A. Veloo, Univ. Medical Center Groningen, Univ. Groningen, Netherlands; gpac104

NCBI tax ID(s): 361500 (species)

SI-ID 398642

DSM 29674, CCUG 69679

Other strains from Anaerococcus degeneri

A. degeneri CCUG 46465

Section

Anaerococcus degeneri UMCG-104 is an anaerobe, mesophilic, Gram-positive human pathogen that was isolated from abdominal abscess.

Gram-positive
anaerobe
human 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	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Peptoniphilaceae*
	Genus	*Anaerococcus*
	Species	**Anaerococcus degeneri**
	Full Scientific Name (LPSN)	Anaerococcus degeneri corrig. Veloo et al. 2017

Synonym

Anaerococcus degenerii

Information on morphological and physiological properties Morphology

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

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24294]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #24294]

Culture medium growth

[Ref.: #24294]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24294]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #24294]			growth	37 °C

[Ref.: #24294]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

anaerobe Confidence in %99.425

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.989

	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]	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.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate 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]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* 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.: #24294]	12865	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	+	-	+/-	-	+	-	-	+/-	+/-	+/-	-	+/-

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

[Ref.: #24294]	Sample type/isolated from	abdominal abscess
[Ref.: #24294]	Geographic location (country and/or sea, region)	University Medical Center Groningen
[Ref.: #24294]	Country	Netherlands
[Ref.: #24294]	Country ISO 3 Code	NLD
[Ref.: #24294]	Continent	Europe

[Ref.: #63646]	Sample type/isolated from	Abdominal abscess,human
[Ref.: #63646]	Sampling date	2002-10-23
[Ref.: #63646]	Geographic location (country and/or sea, region)	Groningen
[Ref.: #63646]	Country	Netherlands
[Ref.: #63646]	Country ISO 3 Code	NLD
[Ref.: #63646]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host Body-Site	#Other	#Abdomen
#Host Body-Site	#Other	#Abscess

What are isolation sources categories?

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

[Ref.: #24294]	Pathogenicity (human)	yes, in single cases
[Ref.: #24294]	Biosafety level	1	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.: #24294]	Anaerococcus degenerii partial 16S rRNA gene, type strain gpac104T	AM176528	1445	ENA	361500 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Anaerococcus degeneri DSM 29674	GCA_017874475	contig	GenBank	361500 tax ID	*
[Ref.: #66792]	Anaerococcus degeneri strain DSM 29674	361500.3	wgs	PATRIC	361500 tax ID	*
[Ref.: #66792]	Anaerococcus degeneri DSM 29674	2913522466	draft	JGI IMG/M	361500 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: Anaerococcus degeneri strain DSM 29674 PATRIC: 361500.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Anaerococcus degeneri strain DSM 29674 PATRIC: 361500.3
[Ref.: #69480]	gram-positive	yes	95.445	no
[Ref.: #69480]	anaerobic	yes	98.681	no
[Ref.: #69480]	halophile	no	57.93	no
[Ref.: #69480]	spore-forming	no	87.387	no
[Ref.: #69480]	glucose-util	yes	83.986	no
[Ref.: #69480]	motile	no	92.157	no
[Ref.: #69480]	flagellated	no	96.856	no
[Ref.: #69480]	thermophile	no	99.298	yes
[Ref.: #69480]	aerobic	no	97.695	no
[Ref.: #69480]	glucose-ferment	yes	79.983	no

Availability in culture collections External links

[Ref.: #24294]

Culture collection no.

DSM 29674, CCUG 69679

[Ref.: #90831]

SI-ID 398642

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Anaerococcus degenerii sp. nov., isolated from human clinical specimens.	Veloo AC, Elgersma PE, van Winkelhoff AJ	Anaerobe	10.1016/j.anaerobe.2015.02.002	2015	*

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 )

#24294

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29674

#63646 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 69679

#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 )

#90831

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-ID398642.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Anaerococcus degeneri in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Anaerococcus degeneri strain DSM 29674

Anaerococcus degeneri strain DSM 29674

Change proposal

Change proposal