Name: Parabacteroides chartae NS31-3
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 12502

Type strain:

Species: Parabacteroides chartae

Strain Designation: NS31-3

Culture col. no.: DSM 24967, JCM 17797

Strain history: H.-Q. Tan NS31-3.

NCBI tax ID(s): 1037355 (species)

SI-ID 397921

DSM 24967

Special Collections

Section

Parabacteroides chartae NS31-3 is an anaerobe, Gram-negative, rod-shaped bacterium that was isolated from wastewater from paper mill.

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	*Tannerellaceae*
	Genus	*Parabacteroides*
	Species	**Parabacteroides chartae**
	Full Scientific Name (LPSN)	Parabacteroides chartae Tan et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30522]	Gram stain	negative

[Ref.: #30522]	Cell length	1.95 µm

[Ref.: #30522]	Cell width	0.85 µm

[Ref.: #30522]	Cell shape	rod-shaped

[Ref.: #30522]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90

[Ref.: #17811]

Incubation period

1-2 days

[Ref.: #30522]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17811]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #17811]

Culture medium growth

[Ref.: #17811]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17811]

Culture medium composition

expand / minimize

[Ref.: #17811]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #17811]

Culture medium growth

[Ref.: #17811]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17811]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17811]	growth	37 °C
[Ref.: #30522]	growth	10-40 °C
[Ref.: #30522]	optimum	36 °C
[Ref.: #67770]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #30522]			optimum	7.25
[Ref.: #30522]			growth	5.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #17811]	Oxygen tolerance	anaerobe
[Ref.: #30522]	Oxygen tolerance	anaerobe

[Ref.: #30522]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %90.982
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30522]		NaCl		growth	0-2	%

[Ref.: #67770]

Observation

quinones: MK-9, MK-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30522]	arabinose ChEBI	+	carbon source
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #30522]	cellobiose ChEBI	+	carbon source
[Ref.: #68380]	D-mannose ChEBI	+	fermentation	* from API rID32A
[Ref.: #30522]	esculin ChEBI	+	hydrolysis
[Ref.: #30522]	glucose ChEBI	+	carbon source
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #30522]	lactose ChEBI	+	carbon source
[Ref.: #30522]	maltose ChEBI	+	carbon source
[Ref.: #30522]	mannitol ChEBI	+	carbon source
[Ref.: #30522]	mannose ChEBI	+	carbon source
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #30522]	raffinose ChEBI	+	carbon source
[Ref.: #68380]	raffinose ChEBI	+	fermentation	* from API rID32A
[Ref.: #30522]	salicin ChEBI	+	carbon source
[Ref.: #30522]	sorbitol ChEBI	+	carbon source
[Ref.: #30522]	sucrose ChEBI	+	carbon source
[Ref.: #30522]	trehalose ChEBI	+	carbon source
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #30522]	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.: #30522]	acid phosphatase	+	3.1.3.2
[Ref.: #68380]	alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #30522]	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.: #30522]	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.: #30522]	gelatinase	+
[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]	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.: #17811]	12448	-	-	+	+	-	+	+	-	-	+	+	+	-	+	-	-	-	+	-	+	-	+	not determinedn.d.	-	+	-	-	+	-

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

[Ref.: #17811]	Sample type/isolated from	wastewater from paper mill
[Ref.: #17811]	Geographic location (country and/or sea, region)	Zhejiang Province, Lingqiao town (30° 15' N 120° 10' E)
[Ref.: #17811]	Country	China
[Ref.: #17811]	Country ISO 3 Code	CHN
[Ref.: #17811]	Continent	Asia
[Ref.: #17811]	Geographic location	30.2500°/120.1670°

[Ref.: #67770]	Sample type/isolated from	Wastewater of a paper mill
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Plant (Factory)
#Engineered	#Waste	#Wastewater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JN029805 (>99% sequence identity) for Macellibacteroides fermentans from Microbeatlas

Aquatic Samples	8663
Soil Samples	798
Animal Samples	9468
Plant Samples	200
Total Samples	19129

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

[Ref.: #17811]

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.: #17811]	Parabacteroides chartae strain NS31-3 16S ribosomal RNA gene, partial sequence	JN029805	1481	GenBank ENA	1037355 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Parabacteroides chartae DSM 24967	GCA_900168155	scaffold	GenBank ENA	1037355 tax ID	*
[Ref.: #66792]	Parabacteroides chartae strain DSM 24967	1037355.4	wgs	PATRIC	1037355 tax ID	*
[Ref.: #66792]	Parabacteroides chartae DSM 24967	2595698220	draft	JGI IMG/M	1037355 tax ID	*

[Ref.: #17811]	GC-content	37.2 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30522]	GC-content	37.2 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: Parabacteroides chartae DSM 24967 NCBI: GCA_900168155.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Parabacteroides chartae DSM 24967 NCBI: GCA_900168155.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	83.749	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	83.609	yes
[Ref.: #69480]	aerobic	aerobicⓘ	no	85.988	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	90.982	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.249	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	90	no

Availability in culture collections External links

[Ref.: #17811]

Culture collection no.

DSM 24967, JCM 17797

[Ref.: #81721]

SI-ID 397921

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Parabacteroides chartae sp. nov., an obligately anaerobic species from wastewater of a paper mill.	Tan HQ, Li TT, Zhu C, Zhang XQ, Wu M, Zhu XF	Int J Syst Evol Microbiol	10.1099/ijs.0.038000-0	2011	*

References

#17811

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24967

#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 )

#30522

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 #26854 (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 )

#81721

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-ID397921.1 )

#26854

IJSEM 2613 2012 ( DOI 10.1099/ijs.0.038000-0 , PubMed 22199215 )

* These data were automatically processed and therefore are not curated

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Parabacteroides chartae DSM 24967

Parabacteroides chartae DSM 24967

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