Name: Staphylococcus ratti NRL/St 03/464
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 169915

Type strain:

Species: Staphylococcus ratti

Strain Designation: NRL/St 03/464

Culture col. no.: DSM 111348, LMG 31873, CCM 9025

Strain history: <- P. Svec, CCM; CCM 9025

NCBI tax ID(s): 2892440 (species)

Special Collections

DSMZ

Section

When using BacDive for research please cite our paper

Staphylococcus ratti NRL/St 03/464 is a bacterium that was isolated from Rat, nostril .

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	*Bacilli*
	Order	*Caryophanales*
	Family	*Staphylococcaceae*
	Genus	*Staphylococcus*
	Species	**Staphylococcus ratti**
	Full Scientific Name (LPSN)	Staphylococcus ratti Kova?ovic et al. 2022

Information on culture and growth conditions Culture and growth conditions

[Ref.: #124380]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #124380]

Culture medium growth

[Ref.: #124380]

Culture medium link

Medium recipe provided by DSMZ

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

microaerophile Confidence in %97.1

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68375]	arabinose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	arginine ChEBI	+	hydrolysis	* from API ID32STA
[Ref.: #68375]	cellobiose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	D-fructose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	D-glucose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	D-mannitol ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	D-mannose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	D-ribose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	esculin ChEBI	-	hydrolysis	* from API ID32STA
[Ref.: #68375]	lactose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	maltose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	N-acetylglucosamine ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	nitrate ChEBI	+	reduction	* from API ID32STA
[Ref.: #68375]	ornithine ChEBI	-	degradation	* from API ID32STA
[Ref.: #68375]	raffinose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	sucrose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	trehalose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	turanose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	urea ChEBI	+	hydrolysis	* from API ID32STA
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Concentration
[Ref.: #68375]		novobiocin ChEBI	yes	1.8	µg	* from API ID32STA

	Metabolite production	Metabolite	Production
[Ref.: #68375]		acetoin ChEBI	no	* from API ID32STA

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #68375]		acetoin ChEBI	-	* from API ID32STA

	Enzyme	Enzyme activity	EC number
[Ref.: #68375]	alkaline phosphatase	+	3.1.3.1	* from API ID32STA
[Ref.: #68375]	arginine dihydrolase	+	3.5.3.6	* from API ID32STA
[Ref.: #68375]	beta-galactosidase	-	3.2.1.23	* from API ID32STA
[Ref.: #68375]	beta-glucosidase	-	3.2.1.21	* from API ID32STA
[Ref.: #68375]	beta-glucuronidase	+	3.2.1.31	* from API ID32STA
[Ref.: #68375]	L-arginine arylamidase	-		* from API ID32STA
[Ref.: #68375]	ornithine decarboxylase	-	4.1.1.17	* from API ID32STA
[Ref.: #68375]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API ID32STA
[Ref.: #68375]	urease	+	3.5.1.5	* from API ID32STA

API® ID32STA:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	Ornithine decarboxylaseODC	Esculin hydrolysisESC	Fermentation of D-glucoseGLU	Fermentation of D-fructoseFRU	Fermentation of D-mannoseMNE	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of trehaloseTRE	Fermentation of D-mannitolMAN	Fermentation of raffinoseRAF	Fermentation of D-riboseRIB	Fermentation of cellobioseCEL	Reduction of nitrateNIT	Acetoin production (Voges Proskauer test)VP	beta-Galactosidasebeta GAL	L-arginine arylamidaseArgA	Alkaline phosphatasePAL	Pyrrolidonyl arylamidasePyrA	Novobiocin resistanceNOVO	Fermentation of sucroseSAC	Fermentation of N-acetyl-glucosamineNAG	Fermentation of turanoseTUR	Fermentation of arabinoseARA	beta-Glucuronidasebeta GUR
[Ref.: #20215]	7001	+	+	-	-	+	+	+	-	+	+	-	-	+	-	+	-	-	-	+	-	-	+	+	-	-	+

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

[Ref.: #124380]	Sample type/isolated from	Rat, nostril (swab sample)
[Ref.: #124380]	Geographic location (country and/or sea, region)	Prague
[Ref.: #124380]	Country	Czech Republic
[Ref.: #124380]	Country ISO 3 Code	CZE
[Ref.: #124380]	Continent	Europe
[Ref.: #124380]	Geographic location	50.0880°/14.4207°
* marker position based on {}

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.: #20215]	Staphylococcus ratti strain CCM 9025 16S ribosomal RNA gene, partial sequence	OL352091	1548	GenBank ENA	2892440 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Staphylococcus ratti CCM 9025	GCA_020883535	complete	GenBank ENA	2892440 tax ID	*
[Ref.: #66792]	Staphylococcus sp. CCM 9025	2892440.4	complete	PATRIC	2892440 tax ID	*
[Ref.: #66792]	Staphylococcus sp. CCM 9025	2892440.3	complete	PATRIC	2892440 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: Staphylococcus ratti CCM 9025 NCBI: GCA_020883535.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	84.117	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	98.384	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	54.295	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	73.109	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	97	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	85.882	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Staphylococcus ratti CCM 9025 NCBI: GCA_020883535
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	65.1
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	50.9
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	73.3
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	microaerophile	97.1

Availability in culture collections External links

[Ref.: #20215]

Culture collection no.

DSM 111348, LMG 31873, CCM 9025

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Staphylococcus ratti sp. nov. Isolated from a Lab Rat.	Kovarovic V, Sedlacek I, Petras P, Kralova S, Maslanova I, Svec P, Neumann-Schaal M, Botka T, Gelbicova T, Stankova E, Doskar J, Pantucek R	Pathogens	10.3390/pathogens11010051	2022	*

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 )

#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) .

#68375

Automatically annotated from API ID32STA .

#124380

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 111348

#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 .

* These data were automatically processed and therefore are not curated

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Staphylococcus ratti CCM 9025

Staphylococcus ratti CCM 9025

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