Name: Atopobium deltae HHRM1715
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 130826

Type strain:

Species: Atopobium deltae

Strain Designation: HHRM1715

Culture col. no.: DSM 29879, CCUG 65171, LMG 27987

Strain history: <- LMG; LMG 27987 <- P. Cools <- M. Oyaert, Dept. of Microbiology, Roeselare, Belgium.

NCBI tax ID(s): 1393034 (species)

SI-ID 391497

LMG 27987, CCUG 65171, DSM 29879

Section

Atopobium deltae HHRM1715 is an obligate anaerobe, mesophilic bacterium that was isolated from blood of a patient with Fournier’s gangrene.

mesophilic
obligate anaerobe
16S sequence
Bacteria

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	*Coriobacteriia*
	Order	*Coriobacteriales*
	Family	*Atopobiaceae*
	Genus	*Atopobium*
	Species	**Atopobium deltae**
	Full Scientific Name (LPSN)	Atopobium deltae Cools et al. 2014

Information on morphological and physiological properties Morphology

[Ref.: #63206]

Incubation period

1 day

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21486]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #21486]

Culture medium growth

[Ref.: #21486]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21486]

Culture medium composition

expand / minimize

[Ref.: #21486]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #21486]

Culture medium growth

[Ref.: #21486]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21486]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21486]			growth	37 °C
[Ref.: #63206]			growth	37 °C

[Ref.: #21486]	Temperature range	mesophilic
[Ref.: #63206]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #21486]	Oxygen tolerance	obligate anaerobe
[Ref.: #63206]	Oxygen tolerance	anaerobe

	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]	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]	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]	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.: #21486]	12867	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+	+	-	+	-	+	+	-	+

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

[Ref.: #21486]	Sample type/isolated from	blood of a patient with Fournier’s gangrene
[Ref.: #21486]	Geographic location (country and/or sea, region)	AZ Delta, Roeselare
[Ref.: #21486]	Country	Belgium
[Ref.: #21486]	Country ISO 3 Code	BEL
[Ref.: #21486]	Continent	Europe

[Ref.: #63206]	Sample type/isolated from	Human blood,Fournier's gangrene
[Ref.: #63206]	Sampling date	2012-12-20
[Ref.: #63206]	Geographic location (country and/or sea, region)	Roeselare
[Ref.: #63206]	Country	Belgium
[Ref.: #63206]	Country ISO 3 Code	BEL
[Ref.: #63206]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Infection	#Patient	-
#Host Body Product	#Fluids	#Blood

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KF537630 (>99% sequence identity) for Atopobium from Microbeatlas

Aquatic Samples	69
Soil Samples	134
Animal Samples	6628
Plant Samples	16
Total Samples	6847

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.: #21486]	Atopobium deltae strain HHRM1715 16S ribosomal RNA gene, partial sequence	KF537630	1368	ENA	1393034 tax ID

[Ref.: #21486]

GC-content

50.3 mol%

Availability in culture collections External links

[Ref.: #21486]

Culture collection no.

DSM 29879, CCUG 65171, LMG 27987

[Ref.: #89313]

SI-ID 391497

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Atopobium deltae sp. nov., isolated from the blood of a patient with Fournier's gangrene.	Cools P, Oyaert M, Vaneechoutte M, De Laere E, Vervaeke S	Int J Syst Evol Microbiol	10.1099/ijs.0.065243-0	2014	*

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 )

#21486

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29879

#63206 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 65171

#68380

Automatically annotated from API rID32A .

#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 .

#89313

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-ID391497.1 )

* These data were automatically processed and therefore are not curated

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