Name: Pseudomonas chlororaphis subsp. piscium JF3835
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13181

Type strain:

Species: Pseudomonas chlororaphis subsp. piscium

Strain Designation: JF3835

Culture col. no.: DSM 21509, NCIMB 14478, CIP 110232

Strain history: CIP <- 2010, J. Frey, Bern Univ., Bern, Switzerland: strain JF3835

NCBI tax ID(s): 1513890 (subspecies)

SI-ID 374143

DSM 21509, NCIMB 14478, CIP 110232

Section

Pseudomonas chlororaphis subsp. piscium JF3835 is an obligate aerobe, mesophilic, motile bacterium that was isolated from distal intestine of a European perch .

motile
mesophilic
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pseudomonadales*
	Family	*Pseudomonadaceae*
	Genus	*Pseudomonas*
	Species	**Pseudomonas chlororaphis subsp. piscium**
	Full Scientific Name (LPSN)	Pseudomonas chlororaphis subsp. piscium Burr et al. 2010

Synonym

"Pseudomonas piscium"

Information on morphological and physiological properties Morphology

[Ref.: #118244]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.997

[Ref.: #118244]	Cell shape	rod-shaped

[Ref.: #118244]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.566

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15754]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #15754]

Culture medium growth

[Ref.: #15754]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15754]

Culture medium composition

expand / minimize

[Ref.: #37587]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #37587]

Culture medium growth

[Ref.: #37587]

Culture medium composition

expand / minimize

[Ref.: #118244]

Culture medium

CIP Medium 72

[Ref.: #118244]

Culture medium growth

[Ref.: #118244]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #15754]			growth	28 °C
[Ref.: #37587]			growth	25 °C

[Ref.: #15754]	Temperature range	mesophilic
[Ref.: #37587]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #118244]

Oxygen tolerance

obligate aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.991

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #118244]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #118244]	nitrite ChEBI	-	reduction
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #118244]		indole ChEBI	no
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	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.: #68369]	arginine dihydrolase	+	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE, API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #118244]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	+		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #118244]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #118244]	urease	-	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #15754]	23025	+	-	-	+	-	-	+	-	+	-	+	+	+	-	+	+	-	+	+	+	+

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.: #118244]	12450	-	+	+	+	-	+	-	-	+	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #15754]	Sample type/isolated from	distal intestine of a European perch (Perca fluviatilis L.)
[Ref.: #15754]	Host species	Perca fluviatilis
[Ref.: #15754]	Geographic location (country and/or sea, region)	Lake of Neuchatel
[Ref.: #15754]	Country	Switzerland
[Ref.: #15754]	Country ISO 3 Code	CHE
[Ref.: #15754]	Continent	Europe

[Ref.: #118244]	Sample type/isolated from	European perch, distal intestine, Perca fluviatilis
[Ref.: #118244]	Geographic location (country and/or sea, region)	Neuchâtel lake
[Ref.: #118244]	Country	Switzerland
[Ref.: #118244]	Country ISO 3 Code	CHE
[Ref.: #118244]	Continent	Europe
[Ref.: #118244]	Isolation date	2006
* marker position based on {}

Isolation sources categories

#Host	#Fishes	-
#Host Body-Site	#Gastrointestinal tract	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ168539 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	1
Soil Samples	3
Animal Samples	6
Plant Samples	3
Total Samples	13

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

[Ref.: #15754]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118244]	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.: #15754]	Pseudomonas chlororaphis subsp. piscium strain JF3835 16S ribosomal RNA gene, partial sequence	FJ168539	1239	ENA	1513890 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudomonas chlororaphis DSM 21509	GCA_028747385	complete	GenBank	587753 tax ID	*
[Ref.: #66792]	Pseudomonas chlororaphis DSM 21509	GCA_900104995	chromosome	GenBank	587753 tax ID	*
[Ref.: #66792]	Pseudomonas chlororaphis strain DSM 21509	587753.26	complete	PATRIC	587753 tax ID	*
[Ref.: #66792]	Pseudomonas chlororaphis subsp. piscium strain DSM 21509	1513890.3	wgs	PATRIC	1513890 tax ID	*
[Ref.: #66792]	Pseudomonas chlororaphis subsp. piscium strain DSM 21509	1513890.7	complete	PATRIC	1513890 tax ID	*
[Ref.: #66792]	Pseudomonas chlororaphis piscium DSM 21509	2667528180	draft	JGI IMG/M	1513890 tax ID	*

[Ref.: #15754]

GC-content

62.9 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: Pseudomonas chlororaphis subsp. piscium strain DSM 21509 PATRIC: 1513890.6
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudomonas chlororaphis subsp. piscium DSM 21509 NCBI: GCA_003850345.1
[Ref.: #69480]	motile	yes	91.909	no
[Ref.: #69480]	flagellated	yes	79.628	no
[Ref.: #69480]	gram-positive	no	98.187	no
[Ref.: #69480]	anaerobic	no	98.721	no
[Ref.: #69480]	aerobic	yes	94.9	no
[Ref.: #69480]	halophile	no	91.397	no
[Ref.: #69480]	spore-forming	no	94.455	no
[Ref.: #69480]	thermophile	no	99.861	no
[Ref.: #69480]	glucose-util	yes	93.972	no
[Ref.: #69480]	glucose-ferment	no	88.586	yes

Availability in culture collections External links

[Ref.: #15754]

Culture collection no.

DSM 21509, NCIMB 14478, CIP 110232

[Ref.: #82389]

SI-ID 374143

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Regulation of phenazine-1-carboxamide production by quorum sensing in type strains of Pseudomonas chlororaphis subsp. chlororaphis and Pseudomonas chlororaphis subsp. piscium.	Morohoshi T, Yabe N, Yaguchi N, Xie X, Someya N	J Biosci Bioeng	10.1016/j.jbiosc.2022.03.004	2022	*
Phylogeny	Pseudomonas chlororaphis subsp. piscium subsp. nov., isolated from freshwater fish.	Burr SE, Gobeli S, Kuhnert P, Goldschmidt-Clermont E, Frey J	Int J Syst Evol Microbiol	10.1099/ijs.0.011692-0	2010	*

References

#15754

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21509

#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 )

#37587 ; Curators of the CIP;

#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) .

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#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 )

#82389

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-ID374143.1 )

#118244 Collection of Institut Pasteur ; Curators of the CIP; CIP 110232
* These data were automatically processed and therefore are not curated

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Pseudomonas chlororaphis subsp. piscium strain DSM 21509

Pseudomonas chlororaphis subsp. piscium DSM 21509

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