Name: Peptostreptococcus stomatis W2278
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11847

Type strain:

Species: Peptostreptococcus stomatis

Strain Designation: W2278

Culture col. no.: DSM 17678, CCUG 51858, JCM 15636

Strain history: CCUG 51858 <-- J. Downes W2278.

NCBI tax ID(s): 596315 (strain), 341694 (species)

SI-ID 290999

CCUG 51858, DSM 17678, JCM 15636

Other strains from Peptostreptococcus stomatis

P. stomatis CCUG 39893
P. stomatis CCUG 44513
P. stomatis CCUG 49327
P. stomatis CCUG 65341

Section

Peptostreptococcus stomatis W2278 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from dento-alveolar abscess.

coccus-shaped
Gram-positive
spore-forming
anaerobe
mesophilic
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	*Clostridia*
	Order	*Eubacteriales*
	Family	*Peptostreptococcaceae*
	Genus	*Peptostreptococcus*
	Species	**Peptostreptococcus stomatis**
	Full Scientific Name (LPSN)	Peptostreptococcus stomatis Downes and Wade 2006

Information on morphological and physiological properties Morphology

[Ref.: #31678]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #31678]	Cell length	0.8-0.9 µm

[Ref.: #31678]	Cell width	0.8 µm

[Ref.: #31678]	Cell shape	coccus-shaped

[Ref.: #69480]	Motility	no Confidence in %90.78

[Ref.: #59346]

Incubation period

2 days

[Ref.: #31678]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7120]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #7120]

Culture medium growth

[Ref.: #7120]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7120]

Culture medium composition

expand / minimize

[Ref.: #7120]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #7120]

Culture medium growth

[Ref.: #7120]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7120]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7120]	growth	37 °C
[Ref.: #31678]	growth	37 °C
[Ref.: #31678]	optimum	37 °C
[Ref.: #59346]	growth	37 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #7120]	Temperature range	mesophilic
[Ref.: #31678]	Temperature range	mesophilic
[Ref.: #59346]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

		pH
[Ref.: #31678]	optimum	7
[Ref.: #31678]	growth	7
[Ref.: #59346]	growth	7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7120]	Oxygen tolerance	anaerobe
[Ref.: #31678]	Oxygen tolerance	anaerobe
[Ref.: #59346]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %100

[Ref.: #31678]	Ability of spore formation	yes
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.876

[Ref.: #31678]

Observation

aggregates in chains

	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.: #31678]	fructose ChEBI	+	carbon source
[Ref.: #31678]	glucose ChEBI	+	carbon source
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #31678]	maltose ChEBI	+	carbon source
[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.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[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]	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.: #7120]	12668	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #7120]	12667	-	-	-	-	-	+	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	aminopropanol phosphate biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	NAD metabolism	94.44	17 of 18
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	chorismate metabolism	77.78	7 of 9
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	alanine metabolism	72.41	21 of 29
[Ref.: #66794]	photosynthesis	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	pyrimidine metabolism	64.44	29 of 45
[Ref.: #66794]	purine metabolism	62.77	59 of 94
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	oxidative phosphorylation	59.34	54 of 91
[Ref.: #66794]	reductive acetyl coenzyme A pathway	57.14	4 of 7
[Ref.: #66794]	heme metabolism	57.14	8 of 14
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	glutamate and glutamine metabolism	53.57	15 of 28
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	C4 and CAM-carbon fixation	50	4 of 8
[Ref.: #66794]	non-pathway related	50	19 of 38
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	methionine metabolism	50	13 of 26
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	isoprenoid biosynthesis	46.15	12 of 26
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	ubiquinone biosynthesis	42.86	3 of 7
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	lysine metabolism	38.1	16 of 42
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	tetrahydrofolate metabolism	35.71	5 of 14
[Ref.: #66794]	tryptophan metabolism	34.21	13 of 38
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	valine metabolism	33.33	3 of 9
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	L-lactaldehyde degradation	33.33	1 of 3
[Ref.: #66794]	lipid metabolism	32.26	10 of 31
[Ref.: #66794]	histidine metabolism	31.03	9 of 29
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	urea cycle	30.77	4 of 13
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	propionate fermentation	30	3 of 10
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	degradation of sugar alcohols	25	4 of 16
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	25	3 of 12
[Ref.: #66794]	isoleucine metabolism	25	2 of 8
[Ref.: #66794]	arginine metabolism	25	6 of 24
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	leucine metabolism	23.08	3 of 13
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #7120]	Sample type/isolated from	dento-alveolar abscess
[Ref.: #7120]	Country	United Kingdom
[Ref.: #7120]	Country ISO 3 Code	GBR
[Ref.: #7120]	Continent	Europe

[Ref.: #59346]	Sample type/isolated from	Human oral cavity
[Ref.: #59346]	Geographic location (country and/or sea, region)	London
[Ref.: #59346]	Country	United Kingdom
[Ref.: #59346]	Country ISO 3 Code	GBR
[Ref.: #59346]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Human oral cavity
* marker position based on {}

Isolation sources categories

#Host Body-Site	#Oral cavity and airways	#Tooth
#Host Body-Site	#Other	#Abscess

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ160208 (>99% sequence identity) for Peptostreptococcus stomatis from Microbeatlas

Aquatic Samples	2003
Soil Samples	1761
Animal Samples	103366
Plant Samples	649
Total Samples	107779

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

[Ref.: #7120]

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.: #7120]	Peptostreptococcus stomatis strain W2278 16S ribosomal RNA gene, partial sequence	DQ160208	1465	ENA	341694 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Peptostreptococcus stomatis DSM 17678	596315.3	wgs	PATRIC	596315 tax ID	*
[Ref.: #66792]	Peptostreptococcus stomatis DSM 17678	648276712	draft	JGI IMG/M	596315 tax ID	*
[Ref.: #66792]	Peptostreptococcus stomatis DSM 17678	GCA_000147675	contig	GenBank	596315 tax ID	*

[Ref.: #7120]	GC-content	36 mol%
[Ref.: #67770]	GC-content	36 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Peptostreptococcus stomatis DSM 17678 PATRIC: 596315.3
[Ref.: #69481]	spore-forming	no	85	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Peptostreptococcus stomatis DSM 17678 PATRIC: 596315.3
[Ref.: #69480]	gram-positive	yes	93.216	no
[Ref.: #69480]	anaerobic	yes	99.555	yes
[Ref.: #69480]	halophile	no	55.257	no
[Ref.: #69480]	spore-forming	no	53.749	yes
[Ref.: #69480]	glucose-util	yes	87.77	yes
[Ref.: #69480]	thermophile	no	97.971	yes
[Ref.: #69480]	flagellated	no	97.542	no
[Ref.: #69480]	aerobic	no	99.083	no
[Ref.: #69480]	motile	no	94.29	no
[Ref.: #69480]	glucose-ferment	yes	66.219	no

Availability in culture collections External links

[Ref.: #7120]

Culture collection no.

DSM 17678, CCUG 51858, JCM 15636

[Ref.: #81065]

SI-ID 290999

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Peptostreptococcus russellii sp. nov., isolated from a swine-manure storage pit.	Whitehead TR, Cotta MA, Falsen E, Moore E, Lawson PA	Int J Syst Evol Microbiol	10.1099/ijs.0.023762-0	2010	*
Phylogeny	Peptostreptococcus stomatis sp. nov., isolated from the human oral cavity.	Downes J, Wade WG	Int J Syst Evol Microbiol	10.1099/ijs.0.64041-0	2006	*

References

#7120

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17678

#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 )

#31678

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 #27955 (see below)

#59346 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 51858

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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 )

#81065

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-ID290999.1 )

#27955

IJSEM 751 2006 ( DOI 10.1099/ijs.0.64041-0 , PubMed 16585688 )

* These data were automatically processed and therefore are not curated

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Peptostreptococcus stomatis DSM 17678

Peptostreptococcus stomatis DSM 17678

Change proposal

Change proposal