Name: Veillonella tobetsuensis B16
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 132910

Type strain:

Species: Veillonella tobetsuensis

Strain Designation: B16

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

Strain history: F. Nakazawa B16.

NCBI tax ID(s): 1110546 (species)

SI-ID 404308

DSM 104750

Special Collections

Section

When using BacDive for research please cite our paper

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

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Negativicutes*
	Order	*Veillonellales*
	Family	*Veillonellaceae*
	Genus	*Veillonella*
	Species	**Veillonella tobetsuensis**
	Full Scientific Name (LPSN)	Veillonella tobetsuensis Mashima et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30703]	Gram stain	negative
[Ref.: #125438]	Gram stain	negative Confidence in %92.373

[Ref.: #30703]	Cell length	0.5 µm

[Ref.: #30703]	Cell width	0.5 µm

[Ref.: #30703]	Cell shape	coccus-shaped

[Ref.: #30703]	Motility	no

[Ref.: #30703]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24698]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #24698]

Culture medium growth

[Ref.: #24698]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24698]

Culture medium composition

expand / minimize

[Ref.: #24698]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #24698]

Culture medium growth

[Ref.: #24698]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24698]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #24698]	growth	37 °C
[Ref.: #30703]	optimum	37 °C
[Ref.: #67770]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30703]

Oxygen tolerance

anaerobe

[Ref.: #30703]

Ability of spore formation

	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.: #30703]	nitrate ChEBI	+	reduction
[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.: #30703]	acid phosphatase	+	3.1.3.2
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #30703]	alkaline phosphatase	+	3.1.3.1
[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.: #24698]	14330	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-

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

[Ref.: #24698]	Sample type/isolated from	tongue biofilm of healthy human adult (26 years)
[Ref.: #24698]	Geographic location (country and/or sea, region)	Health Sciences University of Hokkaido
[Ref.: #24698]	Country	Japan
[Ref.: #24698]	Country ISO 3 Code	JPN
[Ref.: #24698]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Tongue biofilm of healthy human adults
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

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

[Ref.: #24698]

Biosafety level

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.: #24698]	Veillonella tobetsuensis gene for 16S ribosomal RNA, partial sequence	AB679109	1520	GenBank ENA	1110546 tax ID
[Ref.: #124043]	Veillonella tobetsuensis JCM:17976 gene for 16S rRNA, partial sequence.	LC723852	1451	GenBank ENA	1110546 tax ID	*
[Ref.: #124043]	Veillonella tobetsuensis JCM 17976 gene for 16S rRNA, partial sequence.	LC752388	588	GenBank ENA	1110546 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Veillonella tobetsuensis ATCC BAA-2400	GCA_001078375	scaffold	GenBank ENA	1110546 tax ID

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	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.: #125438]	gram-positive	gram-positiveⓘ	no	92.373	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	82.852	yes
[Ref.: #125438]	aerobic	aerobicⓘ	no	89.071	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	79.12	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	93.159	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	88.375	yes

Availability in culture collections External links

[Ref.: #24698]

Culture collection no.

DSM 104750, ATCC BAA-2400, JCM 17976

[Ref.: #91188]

SI-ID 404308

Literature:

Topic	Title	Authors	Journal	DOI	Year
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

#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 (see below)

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

#68380

Automatically annotated from API rID32A .

#91188

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-ID404308.1 )

#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 )

#27034

IJSEM 1443 2013 ( DOI 10.1099/ijs.0.042515-0 , PubMed 22843723 )

* These data were automatically processed and therefore are not curated

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Veillonella tobetsuensis ATCC BAA-2400

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