Alloscardovia criceti OMB105 | Type strain | DSM 17774, JCM 13493, LMG 24385 | BacDiveID:1758

Strain identifier

BacDive ID: 1758

Type strain:

Species: Alloscardovia criceti

Strain Designation: OMB105

Culture col. no.: DSM 17774, JCM 13493, LMG 24385

Strain history: M. Okamoto OMB 105.

NCBI tax ID(s): 1122228 (strain), 356828 (species)

SI-ID 319381

JCM 13493, DSM 17774, LMG 24385

Other strains from Alloscardovia criceti

A. criceti OMB104, DSM 17775
A. criceti OMB107, DSM 17776
A. criceti JCM 13492
A. criceti JCM 13494

Section

Alloscardovia criceti OMB105 is an anaerobe, mesophilic bacterium that was isolated from dental plaque, golden hamster.

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 criceti**
	Full Scientific Name (LPSN)	Alloscardovia criceti (Okamoto et al. 2007) Killer et al. 2013

Synonym

Metascardovia criceti

Information on morphological and physiological properties Morphology

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

[Ref.: #69480]	Motility	no Confidence in %90.272

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

BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7178]			growth	37 °C
[Ref.: #67770]			growth	35 °C

[Ref.: #7178]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7178]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %96.767

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

[Ref.: #7178]	Murein short key	A11.20
[Ref.: #7178]	Murein types	A3alpha L-Lys-L-Ser-L-Ala₂

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]		amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		cellobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-fructose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-galactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-glucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-mannitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-mannose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-ribose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-sorbitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		D-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]		galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		gentiobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		glycerol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		glycogen ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		L-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		L-rhamnose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		lactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		maltose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		methyl alpha-D-glucopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		myo-inositol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		N-acetylglucosamine ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		raffinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		salicin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		starch ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		sucrose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		trehalose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]		xylitol ChEBI	-	builds acid from	* from API 50CH acid
		Only first 10 entries are displayed. Click here to see all.

API® 50CH acid:

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

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #7178]	14365	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	+	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-

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

[Ref.: #7178]	Sample type/isolated from	dental plaque, golden hamster
[Ref.: #7178]	Country	Japan
[Ref.: #7178]	Country ISO 3 Code	JPN
[Ref.: #7178]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Dental plaque of golden hamster fed with a high-carbohydrate diet
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Rodentia (Other)
#Host Body-Site	#Oral cavity and airways	#Plaque
#Host Body-Site	#Oral cavity and airways	#Tooth

What are isolation sources categories?

Global distribution of 16S sequence NR_041347 (>99% sequence identity) for Alloscardovia criceti subclade from Microbeatlas

Aquatic Samples	20
Soil Samples	23
Animal Samples	1560
Plant Samples	6
Total Samples	1609

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

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.: #7178]	Alloscardovia criceti DSM 17774 strain OMB105 16S ribosomal RNA, partial sequence	NR_041347	1455	GenBank	1122228 tax ID
[Ref.: #67770]	Alloscardovia criceti gene for 16S ribosomal RNA, partial sequence, strain: JCM 13493	LC258147	1477	ENA	356828 tax ID
[Ref.: #67770]	Metascardovia criceti gene for 16S ribosomal RNA, partial sequence, strain: OMB105	AB241105	1455	ENA	1122228 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Alloscardovia criceti DSM 17774	GCA_000376885	contig	GenBank	1122228 tax ID
[Ref.: #66792]	Metascardovia criceti DSM 17774	1122228.3	wgs	PATRIC	1122228 tax ID	*
[Ref.: #66792]	Alloscardovia criceti DSM 17774	2519103191	draft	JGI IMG/M	1122228 tax ID	*

[Ref.: #7178]	GC-content	53 mol%
[Ref.: #67770]	GC-content	53 mol%	high performance liquid chromatography (HPLC)

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: Metascardovia criceti DSM 17774 PATRIC: 1122228.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Metascardovia criceti DSM 17774 PATRIC: 1122228.3
[Ref.: #69480]	motile	no	95.931	no
[Ref.: #69480]	flagellated	no	97.248	no
[Ref.: #69480]	gram-positive	yes	90.439	no
[Ref.: #69480]	anaerobic	yes	93.533	yes
[Ref.: #69480]	aerobic	no	97.664	yes
[Ref.: #69480]	halophile	no	55.653	no
[Ref.: #69480]	spore-forming	no	96.691	no
[Ref.: #69480]	thermophile	no	95.767	yes
[Ref.: #69480]	glucose-util	yes	85.584	no
[Ref.: #69480]	glucose-ferment	yes	82.265	no

Availability in culture collections External links

Culture collection no.

DSM 17774, JCM 13493, LMG 24385

SI-ID 319381

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
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	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	Metascardovia criceti Gen. Nov., Sp. Nov., from hamster dental plaque.	Okamoto M, Benno Y, Leung KP, Maeda N	Microbiol Immunol	10.1111/j.1348-0421.2007.tb03964.x	2007	*

References

#7178

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17774

#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) .

#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 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68371

Automatically annotated from API 50CH acid .

#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 )

#71405

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-ID319381.1 )

* These data were automatically processed and therefore are not curated

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