Name: Paraprevotella clara DSM 19731
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 12569

Type strain:

Species: Paraprevotella clara

Culture col. no.: DSM 19731, JCM 14859, YIT 11840

Strain history: M. Morotomi A7 (=YIT 11840).

NCBI tax ID(s): 762968 (strain), 454154 (species)

SI-ID 401674

DSM 19731

Special Collections

Section

Paraprevotella clara DSM 19731 is an anaerobe, Gram-negative, rod-shaped bacterium that was isolated from faecal sample from healthy Japanese male.

Gram-negative
rod-shaped
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	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Prevotellaceae*
	Genus	*Paraprevotella*
	Species	**Paraprevotella clara**
	Full Scientific Name (LPSN)	Paraprevotella clara Morotomi et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29184]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %96.623

[Ref.: #29184]	Cell length	1.45 µm

[Ref.: #29184]	Cell width	0.85 µm

[Ref.: #29184]	Cell shape	rod-shaped

[Ref.: #29184]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.095

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8270]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #8270]

Culture medium growth

[Ref.: #8270]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8270]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #8270]			growth	37 °C
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8270]	Oxygen tolerance	anaerobe
[Ref.: #29184]	Oxygen tolerance	anaerobe

[Ref.: #29184]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %93.497
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-10, MK-11

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29184]	acetate ChEBI	+	carbon source
[Ref.: #29184]	arabinose ChEBI	+	carbon source
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #29184]	glucose ChEBI	+	carbon source
[Ref.: #29184]	glutamate ChEBI	+	carbon source
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #29184]	lactose ChEBI	+	carbon source
[Ref.: #29184]	maltose ChEBI	+	carbon source
[Ref.: #29184]	mannose ChEBI	+	carbon source
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #29184]	raffinose ChEBI	+	carbon source
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #29184]	succinate ChEBI	+	carbon source
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #29184]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	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.: #29184]	acid phosphatase	+	3.1.3.2
[Ref.: #68380]	alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #29184]	alkaline phosphatase	+	3.1.3.1
[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.: #29184]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68380]	alpha-galactosidase	+	3.2.1.22	* from API rID32A
[Ref.: #68380]	alpha-glucosidase	-	3.2.1.20	* 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]	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.: #8270]	12298	-	-	+	+	-	-	-	+	-	-	-	-	-	-	-	-	+	-	-	+/-	-	-	-	-	+	-	-	+	-

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

[Ref.: #8270]	Sample type/isolated from	faecal sample from healthy Japanese male
[Ref.: #8270]	Geographic location (country and/or sea, region)	Tokyo
[Ref.: #8270]	Country	Japan
[Ref.: #8270]	Country ISO 3 Code	JPN
[Ref.: #8270]	Continent	Asia

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

Isolation sources categories

#Infection	#Patient	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)
#Host	#Human	#Male

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB547651 (>99% sequence identity) for Paraprevotella from Microbeatlas

Aquatic Samples	10
Soil Samples	3
Animal Samples	3533
Plant Samples	2
Total Samples	3548

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

[Ref.: #8270]

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.: #8270]	Paraprevotella clara gene for 16S ribosomal RNA, partial sequence	AB331896	1483	GenBank ENA	762968 tax ID
[Ref.: #20218]	Paraprevotella clara gene for 16S ribosomal RNA, partial sequence, strain: JCM 14859	AB547651	1480	GenBank ENA	454154 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Paraprevotella clara YIT 11840	GCA_000233955	scaffold	GenBank ENA	762968 tax ID	*
[Ref.: #66792]	Paraprevotella clara YIT 11840	762968.3	wgs	PATRIC	762968 tax ID	*
[Ref.: #66792]	Paraprevotella clara YIT 11840	2513237390	draft	JGI IMG/M	762968 tax ID	*

[Ref.: #8270]	GC-content	48.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29184]	GC-content	48.1 mol%

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: Paraprevotella clara YIT 11840 YIT 11840 NCBI: GCA_000233955.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paraprevotella clara YIT 11840 YIT 11840 NCBI: GCA_000233955.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	96.623	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	87.809	yes
[Ref.: #69480]	aerobic	aerobicⓘ	no	93.035	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	93.497	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	92.714	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	90.095	yes

Availability in culture collections External links

[Ref.: #8270]

Culture collection no.

DSM 19731, JCM 14859, YIT 11840

[Ref.: #81783]

SI-ID 401674

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paraprevotella clara gen. nov., sp. nov. and Paraprevotella xylaniphila sp. nov., members of the family 'Prevotellaceae' isolated from human faeces.	Morotomi M, Nagai F, Sakon H, Tanaka R	Int J Syst Evol Microbiol	10.1099/ijs.0.008169-0	2009	*

References

#8270

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19731

#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 )

#29184

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 #25608 (see below)

#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 )

#81783

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-ID401674.1 )

#25608

IJSEM 1895 2009 ( DOI 10.1099/ijs.0.008169-0 , PubMed 19567577 )

* These data were automatically processed and therefore are not curated

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Paraprevotella clara YIT 11840 YIT 11840

Paraprevotella clara YIT 11840 YIT 11840

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