Cite this strain

Veillonella ratti (DSM 20736, ATCC 17746, CCUG 56038)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17175

Type strain

Strain Designation RV-12x

Culture col. no. DSM 20736 ATCC 17746 CCUG 56038 NCTC 12019 RV-12x 3 more

NCBI tax ID(s) 103892

Special Collections DSMZ CCUG JCM CIP

Links

Name and taxonomic classification

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

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

SI-ID 36715

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

Last LPSN update 2024-12-09 10:45:00

Domain Bacteria

Phylum Bacillota

Class Negativicutes

Order Veillonellales

Family Veillonellaceae

Genus Veillonella

Species Veillonella ratti

Full scientific name Veillonella ratti (Rogosa 1965) Mays et al. 1982

Synonyms (1)

Veillonella alcalescens subsp. ratti

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
122147	negative	oval-shaped

Colony morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
9046	VEILLONELLA MEDIUM (DSMZ Medium 136)	Medium recipe at MediaDive	Name: VEILLONELLA MEDIUM (DSMZ Medium 136) Composition: Na-(DL)-lactate 7.5 g/l Trypticase 5.0 g/l Yeast extract 3.0 g/l Glucose 1.0 g/l Na-thioglycolate 0.75 g/l Putrescine 0.003 g/l Resazurin 0.001 g/l Tween 80 Distilled water
34950	MEDIUM 20 - for Anaerobic bacteria		Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
122147	CIP Medium 20	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
9046	positive	growth	37	mesophilic
34950	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic

Physiology and metabolism

Enzymes

@ref	Value	Activity	Ec
68380	alanine arylamidase	-	3.4.11.2	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
122147	amylase	-
122147	beta-galactosidase	-	3.2.1.23
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
122147	caseinase	-	3.4.21.50
122147	catalase	+	1.11.1.6
122147	DNase	-
122147	gelatinase	-
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
122147	lecithinase	-
68380	leucine arylamidase	-	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	-	3.4.11.1	from API rID32A
122147	lipase	-
68380	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API rID32A
122147	oxidase	-
68380	phenylalanine arylamidase	-		from API rID32A
68380	proline-arylamidase	-	3.4.11.5	from API rID32A
122147	protease	-
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
122147	tween esterase	+
68380	tyrosine arylamidase	-		from API rID32A
122147	urease	-	3.5.1.5
68380	urease	-	3.5.1.5	from API rID32A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68380	35581 ChEBI	indole		from API rID32A
122147	35581 ChEBI	indole

Metabolite tests

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

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
122147	17057 ChEBI	cellobiose	-	degradation
122147	17108 ChEBI	D-arabinose	-	degradation
122147	15824 ChEBI	D-fructose	+	degradation
122147	17634 ChEBI	D-glucose	-	degradation
68380	16024 ChEBI	D-mannose	-	fermentation	from API rID32A
122147	65327 ChEBI	D-xylose	-	degradation
122147	4853 ChEBI	esculin	-	hydrolysis
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
122147	17716 ChEBI	lactose	-	degradation
122147	17306 ChEBI	maltose	-	degradation
68380	17632 ChEBI	nitrate	+	reduction	from API rID32A
122147	17632 ChEBI	nitrate	+	reduction
122147	17632 ChEBI	nitrate	+	respiration
122147	16301 ChEBI	nitrite	+	reduction
68380	16634 ChEBI	raffinose	-	fermentation	from API rID32A
122147	17814 ChEBI	salicin	-	degradation
122147	17992 ChEBI	sucrose	-	degradation
68380	27897 ChEBI	tryptophan	-	energy source	from API rID32A
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A

Oxygen tolerance

@ref	Oxygen tolerance
9046	anaerobe
122147	anaerobe
125439	obligate aerobe

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
9046	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-
9046	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body-Site	#Oral cavity and airways	#Mouth

Isolation

@ref	Sample type
9046	rat mouth
60838	Rat mouth
67770	Rat
122147	Animal, Rat mouth

Taxonmaps

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

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
9046	1	Risk group (German classification) According to TRBA 466
122147	1	Risk group (French classification) According to TRBA 466

Sequence information

GC content

@ref	GC-content (mol%)
9046	41.0
67770	41

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Veillonella ratti 16S ribosomal RNA gene, partial sequence	AF186071	1509	103892
20218	Veillonella ratti 16S ribosomal RNA gene, partial sequence	AY355138	1396	103892
20218	Veillonella ratti gene for 16S ribosomal RNA, partial sequence, strain: JCM 6512	AB639142	1524	103892
124043	Veillonella ratti JCM 6512 gene for 16S rRNA, partial sequence.	LC752385	588	103892

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Veillonella ratti strain ATCC 17746	103892.4	wgs	PATRIC	103892
66792	Veillonella ratti ATCC 17746	2868207868	draft	JGI IMG/M	103892
67770	Veillonella ratti ATCC 17746	GCA_003992115	contig		103892

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Veillonella ratti ATCC 17746
NCBI: GCA_003992115

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	56.10	no
125439	motility	BacteriaNetⓘ	yes	51.80	no
125439	gram_stain	BacteriaNetⓘ	positive	89.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	91.20	no

Predictions from Diaspora project based on:
Veillonella ratti strain ATCC 17746
PATRIC: 103892.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	89.01	no
125438	anaerobic	anaerobicⓘ	yes	79.59	yes
125438	spore-forming	spore-formingⓘ	no	77.14	no
125438	aerobic	aerobicⓘ	no	91.80	no
125438	thermophilic	thermophileⓘ	no	94.67	no
125438	flagellated	motile2+ⓘ	no	85.48	no

External links

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

Straininfo Link

@ref	Straininfo	Culture collections
86174	36715	ATCC 17746, NCTC 12019, DSM 20736, CIP 108003, JCM 6512, CCUG 56038 A

Culture collection no.

Culture collection no.
DSM 20736
ATCC 17746
CCUG 56038
NCTC 12019
RV-12x
JCM 6512
CIP 108003
AIP 10219

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 .
#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	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 )
#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 .

Rate our new design

Content

About us