Name: Veillonella ratti RV-12x
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 17175

Type strain:

Species: Veillonella ratti

Strain Designation: RV-12x

Culture col. no.: DSM 20736, ATCC 17746, CCUG 56038, NCTC 12019, JCM 6512, CIP 108003, AIP 10219

Strain history: CIP <- 2003, J.P. Carlier, Inst. Pasteur, Paris, France: strain AIP 10219 <- DSMZ <- ATCC <- M. Rogosa

NCBI tax ID(s): 103892 (species)

SI-ID 36715

ATCC 17746, NCTC 12019, DSM 20736, CIP 108003, JCM 6512, CCUG 56038 A

Special Collections

Section

Veillonella ratti RV-12x is an anaerobe, Gram-negative bacterium that was isolated from rat mouth.

Gram-negative
anaerobe
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	*Bacillota*
	Class	*Negativicutes*
	Order	*Veillonellales*
	Family	*Veillonellaceae*
	Genus	*Veillonella*
	Species	**Veillonella ratti**
	Full Scientific Name (LPSN)	Veillonella ratti (Rogosa 1965) Mays et al. 1982

Synonym

Veillonella alcalescens subsp. ratti

Information on morphological and physiological properties Morphology

[Ref.: #122147]	Gram stain	negative

[Ref.: #122147]	Cell shape	oval-shaped

[Ref.: #122147]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9046]

Culture medium

VEILLONELLA MEDIUM (DSMZ Medium 136)

[Ref.: #9046]

Culture medium growth

[Ref.: #9046]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9046]

Culture medium composition

expand / minimize

[Ref.: #34950]

Culture medium

MEDIUM 20 - for Anaerobic bacteria

[Ref.: #34950]

Culture medium growth

[Ref.: #34950]

Culture medium composition

expand / minimize

[Ref.: #122147]

Culture medium

CIP Medium 20

[Ref.: #122147]

Culture medium growth

[Ref.: #122147]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #9046]	growth	37 °C
[Ref.: #34950]	growth	37 °C
[Ref.: #67770]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #9046]	Oxygen tolerance	anaerobe
[Ref.: #122147]	Oxygen tolerance	anaerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #122147]	cellobiose ChEBI	-	degradation
[Ref.: #122147]	D-arabinose ChEBI	-	degradation
[Ref.: #122147]	D-fructose ChEBI	+	degradation
[Ref.: #122147]	D-glucose ChEBI	-	degradation
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #122147]	D-xylose ChEBI	-	degradation
[Ref.: #122147]	esculin ChEBI	-	hydrolysis
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #122147]	lactose ChEBI	-	degradation
[Ref.: #122147]	maltose ChEBI	-	degradation
[Ref.: #122147]	nitrate ChEBI	+	reduction
[Ref.: #122147]	nitrate ChEBI	+	respiration
[Ref.: #68380]	nitrate ChEBI	+	reduction	* from API rID32A
[Ref.: #122147]	nitrite ChEBI	+	reduction
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #122147]	salicin ChEBI	-	degradation
[Ref.: #122147]	sucrose ChEBI	-	degradation
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #122147]		indole ChEBI	no
[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.: #68380]	alanine arylamidase	-	3.4.11.2	* 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.: #122147]	amylase	-
[Ref.: #122147]	beta-galactosidase	-	3.2.1.23
[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.: #122147]	caseinase	-	3.4.21.50
[Ref.: #122147]	catalase	+	1.11.1.6
[Ref.: #122147]	DNase	-
[Ref.: #122147]	gelatinase	-
[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.: #122147]	lecithinase	-
[Ref.: #68380]	leucine arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #122147]	lipase	-
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #122147]	oxidase	-
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #122147]	protease	-
[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.: #122147]	tween esterase	+
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #122147]	urease	-	3.5.1.5
[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.: #9046]	12371	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #9046]	12368	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #9046]	Sample type/isolated from	rat mouth

[Ref.: #60838]	Sample type/isolated from	Rat mouth

[Ref.: #67770]	Sample type/isolated from	Rat

[Ref.: #122147]	Sample type/isolated from	Animal, Rat mouth
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body-Site	#Oral cavity and airways	#Mouth

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF186071 (>99% sequence identity) for Veillonella from Microbeatlas

Aquatic Samples	1397
Soil Samples	357
Animal Samples	36120
Plant Samples	169
Total Samples	38043

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

[Ref.: #9046]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122147]	Biosafety level	1	Risk group (French classification)

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.: #20218]	Veillonella ratti 16S ribosomal RNA gene, partial sequence	AF186071	1509	GenBank ENA	103892 tax ID	*
[Ref.: #20218]	Veillonella ratti 16S ribosomal RNA gene, partial sequence	AY355138	1396	GenBank ENA	103892 tax ID	*
[Ref.: #20218]	Veillonella ratti gene for 16S ribosomal RNA, partial sequence, strain: JCM 6512	AB639142	1524	GenBank ENA	103892 tax ID	*
[Ref.: #124043]	Veillonella ratti JCM 6512 gene for 16S rRNA, partial sequence.	LC752385	588	GenBank ENA	103892 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Veillonella ratti ATCC 17746	GCA_003992115	contig	GenBank ENA	103892 tax ID
[Ref.: #66792]	Veillonella ratti strain ATCC 17746	103892.4	wgs	PATRIC	103892 tax ID	*
[Ref.: #66792]	Veillonella ratti ATCC 17746	2868207868	draft	JGI IMG/M	103892 tax ID	*

[Ref.: #9046]	GC-content	41.0 mol%
[Ref.: #67770]	GC-content	41 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Veillonella ratti strain ATCC 17746 PATRIC: 103892.4
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Veillonella ratti strain ATCC 17746 PATRIC: 103892.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	89.009	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	79.589	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	77.139	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	91.797	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.671	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	85.478	no

Availability in culture collections External links

[Ref.: #9046]

Culture collection no.

DSM 20736, ATCC 17746, CCUG 56038, NCTC 12019, JCM 6512, CIP 108003, AIP 10219

[Ref.: #86174]

SI-ID 36715

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Veillonella magna sp. nov., isolated from the jejunal mucosa of a healthy pig, and emended description of Veillonella ratti.	Kraatz M, Taras D	Int J Syst Evol Microbiol	10.1099/ijs.0.2008/001032-0	2008	*

References

#9046

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20736

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#34950 ; Curators of the CIP;
#60838 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 56038

#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) .

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

#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 )

#86174

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-ID36715.1 )

#122147 Collection of Institut Pasteur ; Curators of the CIP; CIP 108003

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

* These data were automatically processed and therefore are not curated

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Veillonella ratti strain ATCC 17746

Veillonella ratti strain ATCC 17746

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