Name: Paenibacillus chondroitinus 1351
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 11467

Type strain:

Species: Paenibacillus chondroitinus

Strain Designation: 1351

Culture col. no.: DSM 5051, NRRL NRS-1351, CCUG 28527, JCM 9072, ATCC 51184, CCM 4538, CIP 103123, IFO 15376, KCTC 3568, LMG 18040, NBRC 15376, NCIMB 12518, NRRL: NRS-1351

Strain history: CIP <- 1988, L.K. Nakamura, NRRL <- N.R. Smith: strain NRS-1351, Bacillus circulans <- F.E. Clark

NCBI tax ID(s): 1220560 (strain), 59842 (species)

SI-ID 10614

LMG 18040, ATCC 51184, DSM 5051, IFO 15376, JCM 9072, NCIMB 12518, NRRL NRS-1351, CCUG 28527, CIP 103123, NCIB 12518, CCM 4538, KCTC 3568, NBRC 15376, CFBP 4265, BCRC 15913, CCRC 15913, KCTC 3857, KACC 10841

Special Collections

Other strains from Paenibacillus chondroitinus

Section

Paenibacillus chondroitinus 1351 is an obligate aerobe, spore-forming, Gram-negative bacterium that was isolated from soil.

Gram-negative
motile
rod-shaped
spore-forming
obligate aerobe
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	*Bacilli*
	Order	*Caryophanales*
	Family	*Paenibacillaceae*
	Genus	*Paenibacillus*
	Species	**Paenibacillus chondroitinus**
	Full Scientific Name (LPSN)	Paenibacillus chondroitinus (Nakamura 1987) Shida et al. 1997

Synonym

Bacillus chondroitinus

Information on morphological and physiological properties Morphology

[Ref.: #118255]	Gram stain	negative

[Ref.: #118255]	Cell shape	rod-shaped

[Ref.: #118255]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #35489]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #35489]

Culture medium growth

[Ref.: #35489]

Culture medium composition

expand / minimize

[Ref.: #1915]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #1915]

Culture medium growth

[Ref.: #1915]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1915]

Culture medium composition

expand / minimize

[Ref.: #118255]

Culture medium

CIP Medium 3

[Ref.: #118255]

Culture medium growth

[Ref.: #118255]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #118255]

Culture medium

CIP Medium 72

[Ref.: #118255]

Culture medium growth

[Ref.: #118255]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #1915]	growth	30 °C
[Ref.: #35489]	growth	30 °C
[Ref.: #67770]	growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #118255]

Oxygen tolerance

obligate aerobe

[Ref.: #69480]

Ability of spore formation

yes Confidence in %91.003

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68368]	D-glucose ChEBI	+	fermentation	* from API 20E
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68368]	D-mannitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68371]	D-sorbitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #68371]	gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycerol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68368]	L-arabinose ChEBI	-	fermentation	* from API 20E
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	melibiose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #118255]	nitrate ChEBI	-	reduction
[Ref.: #118255]	nitrite ChEBI	-	reduction
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #118255]	indole ChEBI	no
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	+		* from API 20E
[Ref.: #68368]		indole ChEBI		-	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E, API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #118255]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68368]	gelatinase	+		* from API 20E
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #118255]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #118255]	urease	-	3.5.1.5
[Ref.: #68368]	urease	-	3.5.1.5	* from API 20E
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #49272]	5556	+	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	+	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® 50CH acid:

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

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #49272]	2980	-	-	-	-	+	+	+	-	-	+	-	+	+	+	-	-	-	-	+	-	-	-	+	-	+	+	+	+	+	+	+	+	+	-	-	+	+	+	-	+	+	-	-	-	-	-	-	-	-	-
[Ref.: #118255]	9172	not determinedn.d.	-	-	-	+/-	+/-	+/-	-	-	+/-	+/-	+/-	+/-	+/-	-	+/-	-	+/-	+/-	-	+/-	+/-	+/-	+/-	+/-	+/-	+/-	+/-	+/-	+/-	+/-	+/-	+/-	-	+/-	+/-	-	-	-	+/-	+/-	-	-	-	-	-	-	-	-	-

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #118255]	7378	-	-	+	+	-	+	-	-	-	-	+	+	-	+	+	+	-	-	-	-

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

[Ref.: #1915]	Sample type/isolated from	soil

[Ref.: #49272]	Sample type/isolated from	Soil

[Ref.: #67770]	Sample type/isolated from	Soil

[Ref.: #118255]	Sample type/isolated from	Environment, Soil
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

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

[Ref.: #1915]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118255]	Biosafety level	1	Risk group (French classification)

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.: #20218]	Paenibacillus chondroitinus clone JT-3F 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	AF478105	393	GenBank ENA	59842 tax ID	*
[Ref.: #20218]	Paenibacillus chondroitinus partial 16S rRNA gene, isolate OS-213.a	AM237395	970	GenBank ENA	59842 tax ID	*
[Ref.: #20218]	Paenibacillus chondroitinus DNA for 16S rRNA	D82064	1417	GenBank ENA	59842 tax ID	*
[Ref.: #20218]	Paenibacillus chondroitinus gene for 16S rRNA, partial sequence	AB073206	1486	GenBank ENA	59842 tax ID	*
[Ref.: #20218]	Paenibacillus chondroitinus gene for 16S rRNA, partial sequence, strain: NBRC 15376	AB680849	1461	GenBank ENA	59842 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Paenibacillus chondroitinus NBRC 15376	GCA_004000765	contig	GenBank ENA	1220560 tax ID
[Ref.: #66792]	Paenibacillus chondroitinus NBRC 15376	1220560.3	wgs	PATRIC	1220560 tax ID	*

[Ref.: #1915]	GC-content	45.1-46.0 mol%
[Ref.: #67770]	GC-content	47-48 mol%	Buoyant density centrifugation (BD)
[Ref.: #67770]	GC-content	49 mol%	Buoyant density centrifugation (BD)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paenibacillus chondroitinus NBRC 15376 PATRIC: 1220560.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	59.481	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	91.96	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	91.003	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	77.04	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.701	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	79.381	no

Availability in culture collections External links

[Ref.: #1915]

Culture collection no.

DSM 5051, NRRL NRS-1351, CCUG 28527, JCM 9072, ATCC 51184, CCM 4538, CIP 103123, IFO 15376, KCTC 3568, LMG 18040, NBRC 15376, NCIMB 12518, NRRL: NRS-1351

[Ref.: #80701]

SI-ID 10614

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus silvestris sp. nov., Isolated from Forest Soil.	Kim J, Jung HS, Baek JH, Chun BH, Khan SA, Jeon CO	Curr Microbiol	10.1007/s00284-020-02333-4	2021	*
Phylogeny	Paenibacillus anseongense sp. nov. a Silver Nanoparticle Producing Bacterium Isolated from Rhizospheric Soil.	Huq MA	Curr Microbiol	10.1007/s00284-020-02086-0	2020	*
Phylogeny	Paenibacillus aceris sp. nov., isolated from the rhizosphere of Acer okamotoanum, a plant native to Ulleungdo Island, Republic of Korea.	Hwang YJ, Ghim SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.001748	2017	*
Phylogeny	Paenibacillus oryzisoli sp. nov., isolated from the rhizosphere of rice.	Zhang J, Ma XT, Gao JS, Zhang CW, Zhao JJ, Zhang RJ, Ma LA, Zhang XX	Antonie Van Leeuwenhoek	10.1007/s10482-016-0777-3	2016	*
Phylogeny	Paenibacillus alba nov., isolated from peat soil.	Kim HS, Srinivasan S, Lee SS	Curr Microbiol	10.1007/s00284-015-0795-9	2015	*
Phylogeny	Paenibacillus ferrarius sp. nov., isolated from iron mineral soil.	Cao Y, Chen F, Li Y, Wei S, Wang G	Int J Syst Evol Microbiol	10.1099/ijs.0.063552-0	2014	*
Phylogeny	Paenibacillus frigoriresistens sp. nov., a novel psychrotroph isolated from a peat bog in Heilongjiang, Northern China.	Ming H, Nie GX, Jiang HC, Yu TT, Zhou EM, Feng HG, Tang SK, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-012-9738-7	2012	*
Phylogeny	Paenibacillus aestuarii sp. nov., isolated from an estuarine wetland.	Bae JY, Kim KY, Kim JH, Lee K, Cho JC, Cha CJ	Int J Syst Evol Microbiol	10.1099/ijs.0.011544-0	2009	*
Phylogeny	Paenibacillus pectinilyticus sp. nov., isolated from the gut of Diestrammena apicalis.	Park DS, Jeong WJ, Lee KH, Oh HW, Kim BC, Bae KS, Park HY	Int J Syst Evol Microbiol	10.1099/ijs.0.002261-0	2009	*

References

#1915

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5051

#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 )

#35489 ; Curators of the CIP;
#49272 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 28527

#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;

#68368

Automatically annotated from API 20E .

#68371

Automatically annotated from API 50CH acid .

#68382

Automatically annotated from API zym .

#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) .

#80701

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-ID10614.1 )

#118255 Collection of Institut Pasteur ; Curators of the CIP; CIP 103123
* These data were automatically processed and therefore are not curated

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Paenibacillus chondroitinus NBRC 15376

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