Veillonella tobetsuensis (DSM 104750, ATCC BAA-2400, JCM 17976)

Name: Veillonella tobetsuensis (DSM 104750, ATCC BAA-2400, JCM 17976)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132910

Type strain

Strain Designation B16

Culture col. no. DSM 104750 ATCC BAA-2400 JCM 17976 B16

NCBI tax ID(s) 1110546

Special Collections DSMZ JCM Literature strains

History <- JCM; JCM 17976 <- F. Nakazawa; B16 F. Nakazawa B16.

Links

Veillonella tobetsuensis B16 is an anaerobe, Gram-negative, coccus-shaped bacterium that was isolated from tongue biofilm of healthy human adult .

Gram-negative coccus-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 404308

ATCC BAA-2400,JCM 17976,DSM 104750

@ref 20215

Last LPSN update 2026-02-09 11:31:49

Domain Bacteria

Phylum Bacillota

Class Negativicutes

Order Veillonellales

Family Veillonellaceae

Genus Veillonella

Species Veillonella tobetsuensis

Full scientific name Veillonella tobetsuensis Mashima et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
30703	negative	0.5 µm	0.5 µm	coccus-shaped
125438	negative					92.373

Pigmentation

30703

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24698	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)		Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
24698	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)		Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104; with strain-specific modifications) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l Sodium lactate 2.5 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Vitamin K1 NaOH Tween 80 Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
24698	positive	growth	37
30703	positive	optimum	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

30703

Oxygen toleranceanaerobe

Spore formation

30703

Spore formationno

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68380	29016 ChEBI	arginine	-	hydrolysis	from API rID32A
68380	16024 ChEBI	D-mannose	-	fermentation	from API rID32A
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
30703	17632 ChEBI	nitrate	+	reduction
68380	17632 ChEBI	nitrate	+	reduction	from API rID32A
68380	16634 ChEBI	raffinose	-	fermentation	from API rID32A
68380	27897 ChEBI	tryptophan	-	energy source	from API rID32A
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68380	35581 ChEBI	indole		from API rID32A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68380	35581 ChEBI	indole	-	from API rID32A

Enzymes

@ref	Value	Activity	Ec
30703	acid phosphatase	+	3.1.3.2
68380	alanine arylamidase	-	3.4.11.2	from API rID32A
30703	alkaline phosphatase	+	3.1.3.1
68380	alkaline phosphatase	-	3.1.3.1	from API rID32A
68380	alpha-arabinosidase	-	3.2.1.55	from API rID32A
68380	alpha-fucosidase	-	3.2.1.51	from API rID32A
68380	alpha-galactosidase	-	3.2.1.22	from API rID32A
68380	alpha-glucosidase	-	3.2.1.20	from API rID32A
68380	arginine dihydrolase	-	3.5.3.6	from API rID32A
68380	beta-galactosidase	-	3.2.1.23	from API rID32A
68380	beta-Galactosidase 6-phosphate	-		from API rID32A
68380	beta-glucosidase	-	3.2.1.21	from API rID32A
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
68380	glutamate decarboxylase	-	4.1.1.15	from API rID32A
68380	glutamyl-glutamate arylamidase	-		from API rID32A
68380	glycin arylamidase	-		from API rID32A
68380	histidine arylamidase	-		from API rID32A
68380	L-arginine arylamidase	-		from API rID32A
68380	leucine arylamidase	-	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	-	3.4.11.1	from API rID32A
68380	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API rID32A
68380	phenylalanine arylamidase	-		from API rID32A
68380	proline-arylamidase	-	3.4.11.5	from API rID32A
68380	pyrrolidonyl arylamidase	+	3.4.19.3	from API rID32A
68380	serine arylamidase	-		from API rID32A
68380	tryptophan deaminase	-	4.1.99.1	from API rID32A
68380	tyrosine arylamidase	-		from API rID32A
68380	urease	-	3.5.1.5	from API rID32A

API rID32A

@ref	URE	ADH (Arg)	alpha GAL	beta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha GLU	beta GLU	alpha ARA	beta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	MNE	RAF	GDC	alpha FUC	Reduction of nitrateNIT	IND	PAL	L-arginine arylamidaseArgA	ProA	LGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	PyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
24698	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Biofilm	-
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Mouth

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
24698	tongue biofilm of healthy human adult (26 years)	Health Sciences University of Hokkaido	Japan	JPN	Asia
67770	Tongue biofilm of healthy human adults

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24698	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM107837v1 assembly for Veillonella tobetsuensis ATCC BAA-2400	scaffold	GCA_001078375	1110546.3	2645727882	1110546	69.98

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
24698	Veillonella tobetsuensis gene for 16S ribosomal RNA, partial sequence	AB679109	1520	1110546
124043	Veillonella tobetsuensis JCM:17976 gene for 16S rRNA, partial sequence.	LC723852	1451	1110546
124043	Veillonella tobetsuensis JCM 17976 gene for 16S rRNA, partial sequence.	LC752388	588	1110546

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Veillonella tobetsuensis ATCC BAA-2400
NCBI: GCA_001078375.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	92.37	yes
125438	anaerobic	anaerobicⓘ	yes	82.85	yes
125438	aerobic	aerobicⓘ	no	89.07	yes
125438	spore-forming	spore-formingⓘ	no	79.12	yes
125438	thermophilic	thermophileⓘ	no	93.16	yes
125438	flagellated	motile2+ⓘ	no	88.38	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Draft Genome Sequence of Veillonella tobetsuensis ATCC BAA-2400T Isolated from Human Tongue Biofilm.	Mashima I, Nakazawa F.	Genome Announc	10.1128/genomea.00808-15	2015
Metabolism	Microbial and Genetic Resources for Cobalamin (Vitamin B12) Biosynthesis: From Ecosystems to Industrial Biotechnology.	Balabanova L, Averianova L, Marchenok M, Son O, Tekutyeva L.	Int J Mol Sci	10.3390/ijms22094522	2021
Phylogeny	Identification of Veillonella tobetsuensis in tongue biofilm by using a species-specific primer pair.	Mashima I, Nakazawa F	Anaerobe	10.1016/j.anaerobe.2013.04.015	2013
Phylogeny	Veillonella tobetsuensis sp. nov., an anaerobic, gram-negative coccus isolated from human tongue biofilms.	Mashima I, Kamaguchi A, Miyakawa H, Nakazawa F	Int J Syst Evol Microbiol	10.1099/ijs.0.042515-0	2012

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 )
#24698	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 104750
#27034	IJSEM 1443 2013 ( DOI 10.1099/ijs.0.042515-0 , PubMed 22843723 )
#30703	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 #27034
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68380	Automatically annotated from API rID32A .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )
#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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Veillonella tobetsuensis (DSM 104750, ATCC BAA-2400, JCM 17976)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API rID32A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001078375

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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