Alloscardovia omnicolens | Type strain | DSM 21503, CCUG 31649, LMG 23792, CIP 109610 | BacDiveID:1767

Strain identifier

BacDive ID: 1767

Type strain:

Species: Alloscardovia omnicolens

Culture col. no.: DSM 21503, CCUG 31649, LMG 23792, CIP 109610

Strain history: <- CCUG; CCUG 31649 <- K. Ericson, PHL Kristianstad, Sweden;

NCBI tax ID(s): 1120979 (strain), 419015 (species)

SI-ID 51942

CCUG 31649, LMG 23792, DSM 21503

Other strains from Alloscardovia omnicolens

A. omnicolens CIP 101708
A. omnicolens CCUG 7132
A. omnicolens CCUG 13112 B
A. omnicolens CCUG 18650
A. omnicolens CCUG 26938
A. omnicolens CCUG 27412 A
A. omnicolens CCUG 31736
A. omnicolens CCUG 34444
A. omnicolens CCUG 43818
A. omnicolens CCUG 44187
A. omnicolens CCUG 44766
A. omnicolens CCUG 48667
A. omnicolens CCUG 50589
A. omnicolens CCUG 51831
A. omnicolens CCUG 54474
A. omnicolens CCUG 59476
A. omnicolens CCUG 65230
A. omnicolens CCUG 68090

Section

Alloscardovia omnicolens DSM 21503 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from human tonsil, 25-yr-old woman.

Gram-positive
rod-shaped
anaerobe
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	*Bifidobacteriales*
	Family	*Bifidobacteriaceae*
	Genus	*Alloscardovia*
	Species	**Alloscardovia omnicolens**
	Full Scientific Name (LPSN)	Alloscardovia omnicolens Huys et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32013]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #32013]	Cell shape	rod-shaped

[Ref.: #32013]	Motility	no

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #15682]			growth	37 °C
[Ref.: #32013]			growth	28-45 °C
[Ref.: #32013]			optimum	36.5 °C
[Ref.: #50672]			growth	37 °C

[Ref.: #15682]	Temperature range	mesophilic
[Ref.: #32013]	Temperature range	mesophilic
[Ref.: #50672]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #15682]	Oxygen tolerance	anaerobe
[Ref.: #32013]	Oxygen tolerance	facultative anaerobe
[Ref.: #50672]	Oxygen tolerance	microaerophile
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %97.98

[Ref.: #32013]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %100

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32013]		arabinose ChEBI	+	carbon source
[Ref.: #68380]		arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68380]		D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #32013]		esculin ChEBI	+	hydrolysis
[Ref.: #32013]		glucose ChEBI	+	carbon source
[Ref.: #68380]		L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #32013]		maltose ChEBI	+	carbon source
[Ref.: #68380]		nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #32013]		raffinose ChEBI	+	carbon source
[Ref.: #32013]		salicin ChEBI	+	carbon source
[Ref.: #32013]		sucrose ChEBI	+	carbon source
[Ref.: #68380]		tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]		urea ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #32013]		xylose ChEBI	+	carbon source
		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

	Enzymes	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-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #32013]		alpha-galactosidase	+	3.2.1.22
[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 6-phosphate	-		* 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]		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.: #15682]	13282	-	-	+	-	-	+	+/-	+/-	-	-	-	+/-	-	-	-	-	-	+	+	-	+	+	-	+	-	+	+	-	+
[Ref.: #15682]	12745	-	-	+	+/-	-	+	+	+	-	-	-	+	-	-	-	-	-	+	+	-	+	+	-	+	-	+/-	+/-	-	+
[Ref.: #50672]	5017	-	-	+	+	-	+	+	+	-	-	-	+	-	-	-	-	-	+	+	-	+	+	-	+	-	-	+	-	+

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

[Ref.: #15682]	Sample type/isolated from	human tonsil, 25-yr-old woman
[Ref.: #15682]	Country	Sweden
[Ref.: #15682]	Country ISO 3 Code	SWE
[Ref.: #15682]	Continent	Europe

[Ref.: #50672]	Sample type/isolated from	Human tonsil,25-yr-old woman
[Ref.: #50672]	Sampling date	1993-06-15
[Ref.: #50672]	Geographic location (country and/or sea, region)	Kristianstad
[Ref.: #50672]	Country	Sweden
[Ref.: #50672]	Country ISO 3 Code	SWE
[Ref.: #50672]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host	#Human	#Female
#Host Body-Site	#Oral cavity and airways	-

What are isolation sources categories?

Global distribution of 16S sequence AM419460 (>99% sequence identity) for Alloscardovia omnicolens subclade from Microbeatlas

Aquatic Samples	686
Soil Samples	356
Animal Samples	42333
Plant Samples	140
Total Samples	43515

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

Biosafety level

2

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.: #15682]	Alloscardovia omnicolens partial 16S rRNA gene, strain CCUG 31649T	AM419460	1482	ENA	419015 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Alloscardovia omnicolens DSM 21503	GCA_000420505	contig	GenBank	1120979 tax ID	*
[Ref.: #66792]	Alloscardovia omnicolens DSM 21503	1120979.4	wgs	PATRIC	1120979 tax ID	*
[Ref.: #66792]	Alloscardovia omnicolens DSM 21503	2523533599	draft	JGI IMG/M	1120979 tax ID	*

[Ref.: #15682]	GC-content	48.0 mol%
[Ref.: #32013]	GC-content	47.8 mol%

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: Alloscardovia omnicolens DSM 21503 PATRIC: 1120979.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Alloscardovia omnicolens DSM 21503 PATRIC: 1120979.4
[Ref.: #69480]	motile	no	95.601	yes
[Ref.: #69480]	flagellated	no	96.685	yes
[Ref.: #69480]	gram-positive	yes	86.117	no
[Ref.: #69480]	anaerobic	yes	94.488	no
[Ref.: #69480]	aerobic	no	97.895	yes
[Ref.: #69480]	halophile	no	55.854	no
[Ref.: #69480]	spore-forming	no	95.849	yes
[Ref.: #69480]	glucose-util	yes	84.795	yes
[Ref.: #69480]	thermophile	no	93.246	yes
[Ref.: #69480]	glucose-ferment	yes	81.394	no

Availability in culture collections External links

Culture collection no.

DSM 21503, CCUG 31649, LMG 23792, CIP 109610

SI-ID 51942

*

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Alloscardovia theropitheci sp. nov., isolated from the faeces of gelada baboon, the 'bleeding heart' monkey (Theropithecus gelada).	Modesto M, Satti M, Watanabe K, Sciavilla P, Felis GE, Sandri C, Spiezio C, Arita M, Mattarelli P	Int J Syst Evol Microbiol	10.1099/ijsem.0.003584	2019	*
Phylogeny	Alloscardovia venturai sp. nov., a fructose 6-phosphate phosphoketolase-positive species isolated from the oral cavity of a guinea-pig (Cavia aperea f. porcellus).	Sechovcova H, Killer J, Pechar R, Geigerova M, Svejstil R, Salmonova H, Mekadim C, Rada V, Vlkova E, Kofronova O, Benada O	Int J Syst Evol Microbiol	10.1099/ijsem.0.002031	2017	*
Phylogeny	Galliscardovia ingluviei gen. nov., sp. nov., a thermophilic bacterium of the family Bifidobacteriaceae isolated from the crop of a laying hen (Gallus gallus f. domestica).	Pechar R, Killer J, Svejstil R, Salmonova H, Geigerova M, Bunesova V, Rada V, Benada O	Int J Syst Evol Microbiol	10.1099/ijsem.0.001972	2017	*
Pathogenicity	Bacteremia secondary to Alloscardovia omnicolens urinary tract infection.	Ogawa Y, Koizumi A, Kasahara K, Lee ST, Yamada Y, Nakano R, Yano H, Mikasa K	J Infect Chemother	10.1016/j.jiac.2015.12.013	2016	*
Phylogeny	Alloscardovia macacae sp. nov., isolated from the milk of a macaque (Macaca mulatta), emended description of the genus Alloscardovia and proposal of Alloscardovia criceti comb. nov.	Killer J, Rockova S, Vlkova E, Rada V, Havlik J, Kopecny J, Bunesova V, Benada O, Kofronova O, Pechar R, Profousova I	Int J Syst Evol Microbiol	10.1099/ijs.0.051326-0	2013	*
Phylogeny	Bombiscardovia coagulans gen. nov., sp. nov., a new member of the family Bifidobacteriaceae isolated from the digestive tract of bumblebees.	Killer J, Kopecny J, Mrazek J, Havlik J, Koppova I, Benada O, Rada V, Kofronova O	Syst Appl Microbiol	10.1016/j.syapm.2010.08.002	2010	*
Phylogeny	Alloscardovia omnicolens gen. nov., sp. nov., from human clinical samples.	Huys G, Vancanneyt M, D'Haene K, Falsen E, Wauters G, Vandamme P	Int J Syst Evol Microbiol	10.1099/ijs.0.64812-0	2007	*

References

#15682

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21503

#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 )

#32013

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 #28266 (see below)

#50672 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 31649

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 .

#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 )

#71414

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-ID51942.1 )

#28266

IJSEM 1442 2007 ( DOI 10.1099/ijs.0.64812-0 , PubMed 17625172 )

* These data were automatically processed and therefore are not curated

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