Streptococcus ratti (DSM 20564, ATCC 19645, FA1)

Name: Streptococcus ratti (DSM 20564, ATCC 19645, FA1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14763

Type strain

Strain Designation FA1, FA-1

Culture col. no. DSM 20564 ATCC 19645 FA1 CIP 102509 CCM 6068 5 more

NCBI tax ID(s) 699248 1341

Special Collections DSMZ CCUG CIP

History DSMZ <- ATCC <- R.J. Fitzgerald, FA1 CIP <- 1986, ATCC <- R.J. Fitzgerald: strain FA-1

Links

Streptococcus ratti FA1 is a microaerophile, Gram-positive, coccus-shaped bacterium that was isolated from caries lesion in rat.

Gram-positive coccus-shaped microaerophile genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 8069

LMG 14650,ATCC 19645,CCM 6068,CCRC 14745,CCUG 27502,CCUG 27642,CIP 102509,DSM 20564,IMET 3280,LMG 14701,NCFB 2723,NCTC 10920,NCDO 2723,NCIMB 702723,CECT 950,KCTC 3655,BCRC 14745,HAMBI 1518,CNCTC 6712

@ref 20215

Last LPSN update 2026-05-29 08:28:22

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Streptococcaceae

Genus Streptococcus

Species Streptococcus ratti

Full scientific name Streptococcus ratti corrig. Coykendall 1977 (Approved Lists 1980)

Synonyms (1)

Streptococcus rattus

BacDive ID	Other strains from **Streptococcus ratti** (1)	Type strain
135688	S. ratti CIP 74.15, CCUG 27641, LMG 14651

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
125438				92
122146	positive	coccus-shaped

Colony morphology

122146

Hemolysis ability1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
8914	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
38976	MEDIUM 29- Brain heart agar		Distilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122146	CIP Medium 72	Medium recipe at CIP
122146	CIP Medium 29	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
8914	positive	growth	37
38976	positive	growth	37
122146	positive	growth	30-37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
8914	microaerophile
122146	facultative anaerobe
125439	obligate aerobe	96.918

Spore formation

@ref	Spore formation	Confidence
125439		95.843

Murein

@ref	Murein short key	Type
8914	A11.05	A3alpha L-Lys-L-Ala₂

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68381	40585 ChEBI	alpha-cyclodextrin	-	builds acid from	from API rID32STR
68371	27613 ChEBI	amygdalin	+	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	+	builds acid from	from API 50CH acid
68381	29016 ChEBI	arginine	+	hydrolysis	from API rID32STR
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68381	18333 ChEBI	D-arabitol	-	builds acid from	from API rID32STR
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
68381	16899 ChEBI	D-mannitol	+	builds acid from	from API rID32STR
68371	16899 ChEBI	D-mannitol	+	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68381	16988 ChEBI	D-ribose	-	builds acid from	from API rID32STR
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	+	builds acid from	from API 50CH acid
68381	16443 ChEBI	D-tagatose	+	builds acid from	from API rID32STR
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
122146	4853 ChEBI	esculin	+	hydrolysis
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
68381	28087 ChEBI	glycogen	-	builds acid from	from API rID32STR
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68381	606565 ChEBI	hippurate	-	hydrolysis	from API rID32STR
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68381	30849 ChEBI	L-arabinose	-	builds acid from	from API rID32STR
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
68381	17716 ChEBI	lactose	+	builds acid from	from API rID32STR
68371	17716 ChEBI	lactose	+	builds acid from	from API 50CH acid
68381	17306 ChEBI	maltose	+	builds acid from	from API rID32STR
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
68381	6731 ChEBI	melezitose	-	builds acid from	from API rID32STR
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68381	28053 ChEBI	melibiose	+	builds acid from	from API rID32STR
68371	28053 ChEBI	melibiose	+	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
68381	320055 ChEBI	methyl beta-D-glucopyranoside	+	builds acid from	from API rID32STR
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
122146	17632 ChEBI	nitrate	-	reduction
122146	16301 ChEBI	nitrite	-	reduction
68371	0 ChEBI	Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	0 ChEBI	Potassium 5-ketogluconate	+	builds acid from	from API 50CH acid
68381	27941 ChEBI	pullulan	-	builds acid from	from API rID32STR
68381	16634 ChEBI	raffinose	+	builds acid from	from API rID32STR
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
68381	30911 ChEBI	sorbitol	+	builds acid from	from API rID32STR
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68381	17992 ChEBI	sucrose	+	builds acid from	from API rID32STR
68371	17992 ChEBI	sucrose	+	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	+	builds acid from	from API 50CH acid
68381	27082 ChEBI	trehalose	+	builds acid from	from API rID32STR
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68381	16199 ChEBI	urea	-	hydrolysis	from API rID32STR
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68381	15688 ChEBI	acetoin		from API rID32STR

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
68381	15688 ChEBI	acetoin	+	from API rID32STR

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
68381	Alanyl-Phenylalanyl-Proline arylamidase	+		from API rID32STR
122146	alcohol dehydrogenase	+	1.1.1.1
68381	alkaline phosphatase	-	3.1.3.1	from API rID32STR
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68381	alpha-galactosidase	+	3.2.1.22	from API rID32STR
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68381	arginine dihydrolase	+	3.5.3.6	from API rID32STR
68381	beta-galactosidase	-	3.2.1.23	from API rID32STR
68382	beta-galactosidase	-	3.2.1.23	from API zym
122146	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68381	beta-glucosidase	+	3.2.1.21	from API rID32STR
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68381	beta-glucuronidase	-	3.2.1.31	from API rID32STR
68381	beta-mannosidase	-	3.2.1.25	from API rID32STR
122146	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
68381	glycyl tryptophan arylamidase	-		from API rID32STR
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
122146	lysine decarboxylase	-	4.1.1.18
68381	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API rID32STR
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
122146	ornithine decarboxylase	-	4.1.1.17
122146	oxidase	-
68381	pyrrolidonyl arylamidase	-	3.4.19.3	from API rID32STR
68382	trypsin	-	3.4.21.4	from API zym
68381	urease	-	3.5.1.5	from API rID32STR
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
122146	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	+	+	-	-	-

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
122146	not determinedn.d.	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	-	-	+	+	-	-	+	+	+	+	+	+	+	+	+	+	+	-	-	+	-	-	-	+	-	-	+	-	-	+/-	-	-	-	+

API rID32STR

@ref	ADH (Arg)	beta GLU	beta GAR	beta GUR	alpha GAL	PAL	RIB	MAN	SOR	LAC	TRE	RAF	SAC	LARA	DARL	Acid from alpha-cyclodextrinCDEX	Acetoin production (Voges Proskauer test)VP	Alanyl-Phenylalanyl-Proline arylamidaseAPPA	beta GAL	Pyrrolidonyl arylamidasePyrA	N-Acetyl-glucosaminidasebeta NAG	Glycyl-tryptophan arylamidaseGTA	HIP	GLYG	PUL	MAL	MEL	MLZ	Acidification of methyl beta-D-glucopyranosideMbeta DG	TAG	beta MAN	URE
8914	+	+	-	-	+	-	-	+	+	+	+	+	+	-	-	-	+	+	-	-	-	-	-	-	-	+	+	-	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type
8914	caries lesion in rat
122146	Animal, Rat, caries lesion

Taxonmaps

69479

Global distribution of 16S sequence AJ420201 (>99% sequence identity) for Streptococcus ratti from Microbeatlas

Aquatic Samples	18
Soil Samples	6
Animal Samples	4655
Plant Samples	34
Total Samples	4713

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
8914	1	Risk group (German classification) According to TRBA 466
122146	2	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM28607v1 assembly for Streptococcus ratti FA-1 = DSM 20564	contig	GCA_000286075	699248.3	2534681768	699248	77.59
66792	DSM20564_V1 assembly for Streptococcus ratti FA-1 = DSM 20564	contig	GCA_000347915	699248.4	2534682097	699248	42.52

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptococcus ratti partial 16S rRNA gene, strain ATCC19645	AJ420201	1444	1341
20218	Streptococcus ratti strain CCUG 27642 16S-23S ribosomal RNA intergenic spacer, partial sequence	DQ204497	527	1341
20218	S.rattus 16S rRNA	X58304	1334	1341

GC content

8914

GC-content (mol%)42.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM28607v1 assembly for Streptococcus ratti FA-1 = DSM 20564
NCBI: GCA_000286075

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.92	no
125439	gram_stain	BacteriaNetⓘ	positive	81.50	no
125439	motility	BacteriaNetⓘ	no	80.82	no
125439	spore_formation	BacteriaNetⓘ	no	95.84	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptococcus ratti FA-1 = DSM 20564
PATRIC: 699248.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	85.85	no
125438	anaerobic	anaerobicⓘ	no	86.79	no
125438	spore-forming	spore-formingⓘ	no	89.45	no
125438	aerobic	aerobicⓘ	no	96.31	yes
125438	thermophilic	thermophileⓘ	no	95.00	no
125438	flagellated	motile2+ⓘ	no	92.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	The Evaluation of the Effects of Two Probiotic Strains on the Oral Ecosystem: A Randomized Clinical Trial.	Volgenant CMC, van der Waal SV, Brandt BW, Buijs MJ, van der Veen MH, Rosema NAM, Fiebich BL, Rose T, Schmitter T, Gajfulin M, Crielaard W, Zaura E.	Front Oral Health	10.3389/froh.2022.825017	2022
	Ursoricin, a bacteriocin of Streptococcus ursoris, has potent activity against methicillin-resistant Staphylococcus aureus and vancomycin-resistant enterococci.	Wang C, Le MN-T, Kawada-Matsuo M, Hisatsune J, Sugawara Y, Arai C, Nakanishi J, Takeda K, Shiba H, Sugai M, Komatsuzawa H.	Appl Environ Microbiol	10.1128/aem.00162-24	2024
Enzymology	Comparison of culture media and chairside assays for enumerating mutans streptococci.	Hildebrandt GH, Bretz WA.	J Appl Microbiol	10.1111/j.1365-2672.2006.02877.x	2006
Metabolism	Regulation of bacteriocin production and cell death by the VicRK signaling system in Streptococcus mutans.	Senadheera DB, Cordova M, Ayala EA, Chavez de Paz LE, Singh K, Downey JS, Svensater G, Goodman SD, Cvitkovitch DG.	J Bacteriol	10.1128/jb.06071-11	2012
Enzymology	Population structure of plasmid-containing strains of Streptococcus mutans, a member of the human indigenous biota.	Caufield PW, Saxena D, Fitch D, Li Y.	J Bacteriol	10.1128/jb.01183-06	2007
Phylogeny	Rapid detection and identification of Streptococcus ratti by a species-specific PCR method.	Nishio J, Taniguchi M, Higashi J, Takahashi M, Ando T, Hasegawa T, Igarashi T	Anaerobe	10.1016/j.anaerobe.2011.09.001	2011
Genetics	Molecular characterization of dextranase from Streptococcus rattus.	Igarashi T, Morisaki H, Goto N	Microbiol Immunol	10.1111/j.1348-0421.2004.tb03501.x	2004
Phylogeny	Streptococcus ursoris sp. nov., isolated from the oral cavities of bears.	Shinozaki-Kuwahara N, Takada K, Hirasawa M	Int J Syst Evol Microbiol	10.1099/ijs.0.019638-0	2010

References

#8914	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20564
#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 )
#38976	; Curators of the CIP;
#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) .
#68371	Automatically annotated from API 50CH acid .
#68381	Automatically annotated from API rID32STR .
#68382	Automatically annotated from API zym .
#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 .
#122146	Collection of Institut Pasteur ; Curators of the CIP; CIP 102509
#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 )

Content

About us

Streptococcus ratti (DSM 20564, ATCC 19645, FA1)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Murein

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 50CHac

API rID32STR

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000286075

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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