Alloscardovia criceti (DSM 17774, JCM 13493, OMB105)

Name: Alloscardovia criceti (DSM 17774, JCM 13493, OMB105)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1758

Type strain

Strain Designation OMB105

Culture col. no. DSM 17774 JCM 13493 OMB105 LMG 24385

NCBI tax ID(s) 1122228 356828

Special Collections DSMZ JCM

History <- Masaaki Okamoto, OMB105 M. Okamoto OMB 105.

Links

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

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 319381

JCM 13493,DSM 17774,LMG 24385

@ref 20215

Last LPSN update 2026-02-09 11:18:10

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Bifidobacteriales

Family Bifidobacteriaceae

Genus Alloscardovia

Species Alloscardovia criceti

Full scientific name Alloscardovia criceti (Okamoto et al. 2007) Killer et al. 2013

Synonyms (1)

Metascardovia criceti

BacDive ID	Other strains from **Alloscardovia criceti** (4)	Type strain
1759	A. criceti OMB104, DSM 17775
1760	A. criceti OMB107, DSM 17776
161367	A. criceti JCM 13492
161368	A. criceti JCM 13494

Morphology

Cell morphology

@ref	Motility	Confidence
125438		93.5

Multimedia

@ref:	66793
multimedia content:	EM_DSM_17774_1.jpg
multimedia.multimedia content:	EM_DSM_17774_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17774_2.jpg
multimedia.multimedia content:	EM_DSM_17774_2.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17774_3.jpg
multimedia.multimedia content:	EM_DSM_17774_3.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17774_4.jpg
multimedia.multimedia content:	EM_DSM_17774_4.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_17774_5.jpg
multimedia.multimedia content:	EM_DSM_17774_5.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7178	BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)		Medium recipe at MediaDive	Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7178	positive	growth	37	mesophilic
67770	positive	growth	35	mesophilic

Physiology and metabolism

Oxygen tolerance

7178

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.4

Murein

@ref	Murein short key	Type
7178	A11.20	A3alpha L-Lys-L-Ser-L-Ala₂

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
7178	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	+	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Rodentia (Other)
#Host Body-Site	#Oral cavity and airways	#Plaque
#Host Body-Site	#Oral cavity and airways	#Tooth

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
7178	dental plaque, golden hamster	Japan	JPN	Asia
67770	Dental plaque of golden hamster fed with a high-carbohydrate diet

Taxonmaps

69479

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7178	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM37688v1 assembly for Alloscardovia criceti DSM 17774	contig	GCA_000376885	1122228.3	2519103191	1122228	67.69

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
7178	Alloscardovia criceti DSM 17774 strain OMB105 16S ribosomal RNA, partial sequence	NR_041347	1455	1122228
67770	Metascardovia criceti gene for 16S ribosomal RNA, partial sequence, strain: OMB105	AB241105	1455	1122228
67770	Alloscardovia criceti gene for 16S ribosomal RNA, partial sequence, strain: JCM 13493	LC258147	1477	356828

GC content

@ref	GC-content (mol%)	Method
7178	53
67770	53	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Alloscardovia criceti DSM 17774
NCBI: GCA_000376885

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	microaerophile	89.20	no
125439	gram_stain	BacteriaNetⓘ	positive	81.60	no
125439	motility	BacteriaNetⓘ	no	88.10	no
125439	spore_formation	BacteriaNetⓘ	no	99.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Metascardovia criceti DSM 17774
PATRIC: 1122228.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	85.93	no
125438	anaerobic	anaerobicⓘ	yes	73.82	yes
125438	spore-forming	spore-formingⓘ	no	89.58	no
125438	aerobic	aerobicⓘ	no	92.74	yes
125438	thermophilic	thermophileⓘ	no	94.10	yes
125438	flagellated	motile2+ⓘ	no	93.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Comparative genomic and phylogenomic analyses of the Bifidobacteriaceae family.	Lugli GA, Milani C, Turroni F, Duranti S, Mancabelli L, Mangifesta M, Ferrario C, Modesto M, Mattarelli P, Jiri K, van Sinderen D, Ventura M.	BMC Genomics	10.1186/s12864-017-3955-4	2017
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
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

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 )
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Alloscardovia criceti (DSM 17774, JCM 13493, OMB105)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Murein

Metabolite utilization

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000376885

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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